Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Changes to MBR within FlashLFQ #802

Merged
merged 164 commits into from
Nov 5, 2024
Merged

Changes to MBR within FlashLFQ #802

merged 164 commits into from
Nov 5, 2024

Commits on Oct 23, 2023

  1. Predict Retention Time function added

    @Alexander-Sol
    Alexander-Sol committed Oct 23, 2023
    Configuration menu
    Copy the full SHA
    4fe3343 View commit details
    Browse the repository at this point in the history

  2. breaking up mbr function, cont'd

    @Alexander-Sol
    Alexander-Sol committed Oct 23, 2023
    Configuration menu
    Copy the full SHA
    742ac30 View commit details
    Browse the repository at this point in the history

Commits on Oct 31, 2023

  1. Decoy search is working

    @Alexander-Sol
    Alexander-Sol committed Oct 31, 2023
    Configuration menu
    Copy the full SHA
    e51a740 View commit details
    Browse the repository at this point in the history

Commits on Jan 30, 2024

  1. Merge branch 'master' into MbrRefactor

    @Alexander-Sol
    Alexander-Sol committed Jan 30, 2024
    Configuration menu
    Copy the full SHA
    dc4493e View commit details
    Browse the repository at this point in the history

  2. Removed decoy toggle from GetIsotopicEnvelopes

    @Alexander-Sol
    Alexander-Sol committed Jan 30, 2024
    Configuration menu
    Copy the full SHA
    31ff285 View commit details
    Browse the repository at this point in the history

  3. About to start MbrScorer refactor

    @Alexander-Sol
    Alexander-Sol committed Jan 30, 2024
    Configuration menu
    Copy the full SHA
    dda57b6 View commit details
    Browse the repository at this point in the history

  4. Refactor of MBR is working succesfully

    @Alexander-Sol
    Alexander-Sol committed Jan 30, 2024
    Configuration menu
    Copy the full SHA
    ca9928a View commit details
    Browse the repository at this point in the history

  5. Deleted unused code

    @Alexander-Sol
    Alexander-Sol committed Jan 30, 2024
    Configuration menu
    Copy the full SHA
    15efaac View commit details
    Browse the repository at this point in the history

Commits on Jan 31, 2024

  1. got those decoys decoying naw mean

    @Alexander-Sol
    Alexander-Sol committed Jan 31, 2024
    Configuration menu
    Copy the full SHA
    48239cc View commit details
    Browse the repository at this point in the history

  2. refactore MBR to use concurrent dictionaries

    @Alexander-Sol
    Alexander-Sol committed Jan 31, 2024
    Configuration menu
    Copy the full SHA
    add08ab View commit details
    Browse the repository at this point in the history

Commits on Feb 2, 2024

  1. Test method with output

    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    1da0e13 View commit details
    Browse the repository at this point in the history

  2. Deleted unused fields and references to PearsonCorrelation in isotopi… 

    …cEnvelope class and CheckEnvelope method
    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    03efb21 View commit details
    Browse the repository at this point in the history

  3. Deleted unused using statements in FlashLFQ engine

    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    5eb2637 View commit details
    Browse the repository at this point in the history

  4. Commented + removed unused variables for PredicteRetentionTime method

    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    1aeeb96 View commit details
    Browse the repository at this point in the history

  5. Added comments, removed unused using statements

    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    112ae41 View commit details
    Browse the repository at this point in the history

  6. Merge branch 'master' into MbrRefactor

    @Alexander-Sol
    Alexander-Sol authored Feb 2, 2024
    Configuration menu
    Copy the full SHA
    7703b75 View commit details
    Browse the repository at this point in the history

  7. Deleted unused variables

    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    e3fe1e2 View commit details
    Browse the repository at this point in the history

  8. Merge branch 'MbrRefactor' of https://github.com/Alexander-Sol/mzLib … 

    …into MbrRefactor
    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    8993a25 View commit details
    Browse the repository at this point in the history

  9. fixed merge conflicts

    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    7d9b6b1 View commit details
    Browse the repository at this point in the history

  10. Tests are still passing, but I'm about to break things

    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    40d5f45 View commit details
    Browse the repository at this point in the history

  11. Edited scoring method

    @Alexander-Sol
    Alexander-Sol committed Feb 2, 2024
    Configuration menu
    Copy the full SHA
    4f3fc9d View commit details
    Browse the repository at this point in the history

Commits on Feb 6, 2024

  1. Umm, edited scoring, increased ppm tolerance, changed minimum rt widt… 

    …h for variance and random rt transfers
    @Alexander-Sol
    Alexander-Sol committed Feb 6, 2024
    Configuration menu
    Copy the full SHA
    79b2890 View commit details
    Browse the repository at this point in the history

Commits on Feb 7, 2024

  1. Did some weird filtering of donor files that should probably be reverted

    @Alexander-Sol
    Alexander-Sol committed Feb 7, 2024
    Configuration menu
    Copy the full SHA
    5d5c1ee View commit details
    Browse the repository at this point in the history

Commits on Feb 12, 2024

  1. Peak Organism fix

    @Alexander-Sol
    Alexander-Sol committed Feb 12, 2024
    Configuration menu
    Copy the full SHA
    4a9149c View commit details
    Browse the repository at this point in the history

Commits on Feb 13, 2024

  1. fixed merge conflicts

    @Alexander-Sol
    Alexander-Sol committed Feb 13, 2024
    Configuration menu
    Copy the full SHA
    d8a7a0c View commit details
    Browse the repository at this point in the history

Commits on Feb 15, 2024

  1. Basically works, QValue still underestimates

    @Alexander-Sol
    Alexander-Sol committed Feb 15, 2024
    Configuration menu
    Copy the full SHA
    61fac1c View commit details
    Browse the repository at this point in the history

Commits on Feb 19, 2024

  1. Minor changes to peakfinding

    @Alexander-Sol
    Alexander-Sol committed Feb 19, 2024
    Configuration menu
    Copy the full SHA
    363c457 View commit details
    Browse the repository at this point in the history

Commits on Feb 29, 2024

  1. MSMS double checking

    @Alexander-Sol
    Alexander-Sol committed Feb 29, 2024
    Configuration menu
    Copy the full SHA
    c4720ba View commit details
    Browse the repository at this point in the history

  2. Removed msms double checking

    @Alexander-Sol
    Alexander-Sol committed Feb 29, 2024
    Configuration menu
    Copy the full SHA
    9ade14a View commit details
    Browse the repository at this point in the history

Commits on Mar 1, 2024

  1. Add check for MBR/MSMS peak collision

    @Alexander-Sol
    Alexander-Sol committed Mar 1, 2024
    Configuration menu
    Copy the full SHA
    e595cd4 View commit details
    Browse the repository at this point in the history

Commits on Mar 7, 2024

  1. Changed peak decoy selection method

    @Alexander-Sol
    Alexander-Sol committed Mar 7, 2024
    Configuration menu
    Copy the full SHA
    c88e32e View commit details
    Browse the repository at this point in the history

  2. Optional PeptidesForMbr argument added, not covered in previous commi… 

    …t messages. Not actually this commit
    @Alexander-Sol
    Alexander-Sol committed Mar 7, 2024
    Configuration menu
    Copy the full SHA
    b6dbc8c View commit details
    Browse the repository at this point in the history

  3. 5.3.2.4 - Changed randomRT selection method

    @Alexander-Sol
    Alexander-Sol committed Mar 7, 2024
    Configuration menu
    Copy the full SHA
    b12c44c View commit details
    Browse the repository at this point in the history

  4. 5.3.2.5 - Minimum rtWindowWidth = 30 seconds

    @Alexander-Sol
    Alexander-Sol committed Mar 7, 2024
    Configuration menu
    Copy the full SHA
    6d96aa7 View commit details
    Browse the repository at this point in the history

  5. Actually updated nuget

    @Alexander-Sol
    Alexander-Sol committed Mar 7, 2024
    Configuration menu
    Copy the full SHA
    8bb7cbe View commit details
    Browse the repository at this point in the history

  6. 5.3.2.6 - Fixed decoy search. 2.4 and 2.5 are junk

    @Alexander-Sol
    Alexander-Sol committed Mar 7, 2024
    Configuration menu
    Copy the full SHA
    42e922c View commit details
    Browse the repository at this point in the history

Commits on Mar 8, 2024

  1. Changed MBR RT prediction method

    @Alexander-Sol
    Alexander-Sol committed Mar 8, 2024
    Configuration menu
    Copy the full SHA
    12f3f34 View commit details
    Browse the repository at this point in the history

  2. Fixed bug in rtPrediction

    @Alexander-Sol
    Alexander-Sol committed Mar 8, 2024
    Configuration menu
    Copy the full SHA
    175e0a7 View commit details
    Browse the repository at this point in the history

Commits on Mar 9, 2024

  1. Changed decoy search method and fixed issues with decoy rt scoring

    @Alexander-Sol
    Alexander-Sol committed Mar 9, 2024
    Configuration menu
    Copy the full SHA
    bcf8d7c View commit details
    Browse the repository at this point in the history

  2. small changes to double check procedure

    @Alexander-Sol
    Alexander-Sol committed Mar 9, 2024
    Configuration menu
    Copy the full SHA
    768b921 View commit details
    Browse the repository at this point in the history

  3. Fixed merge conflicts

    @Alexander-Sol
    Alexander-Sol committed Mar 9, 2024
    Configuration menu
    Copy the full SHA
    b324efe View commit details
    Browse the repository at this point in the history

  4. Finished Merging in MbrFdr - mzLib 5341

    @Alexander-Sol
    Alexander-Sol committed Mar 9, 2024
    Configuration menu
    Copy the full SHA
    9d13eb2 View commit details
    Browse the repository at this point in the history

  5. minor

    @Alexander-Sol
    Alexander-Sol committed Mar 9, 2024
    Configuration menu
    Copy the full SHA
    b147e3b View commit details
    Browse the repository at this point in the history

  6. Actually changed nuspec

    @Alexander-Sol
    Alexander-Sol committed Mar 9, 2024
    Configuration menu
    Copy the full SHA
    01482fc View commit details
    Browse the repository at this point in the history

  7. Increased Rt Range

    @Alexander-Sol
    Alexander-Sol committed Mar 9, 2024
    Configuration menu
    Copy the full SHA
    5ee1d21 View commit details
    Browse the repository at this point in the history

  8. Increased doublecheck count to 2500. mzLib 5343

    @Alexander-Sol
    Alexander-Sol committed Mar 9, 2024
    Configuration menu
    Copy the full SHA
    7e32625 View commit details
    Browse the repository at this point in the history

  9. reduced window slightly. mzLib 5344

    @Alexander-Sol
    Alexander-Sol committed Mar 9, 2024
    Configuration menu
    Copy the full SHA
    3ceb447 View commit details
    Browse the repository at this point in the history

Commits on Apr 18, 2024

  1. amended rt scoring distribution in mbr scorer

    @Alexander-Sol
    Alexander-Sol committed Apr 18, 2024
    Configuration menu
    Copy the full SHA
    1d5422f View commit details
    Browse the repository at this point in the history

  2. Mostly deleted stuff that will be introduced in a different commit

    @Alexander-Sol
    Alexander-Sol committed Apr 18, 2024
    Configuration menu
    Copy the full SHA
    5cbb1c5 View commit details
    Browse the repository at this point in the history

  3. Fixed all tests but one

    @Alexander-Sol
    Alexander-Sol committed Apr 18, 2024
    Configuration menu
    Copy the full SHA
    c5249aa View commit details
    Browse the repository at this point in the history

  4. Fixed final test

    @Alexander-Sol
    Alexander-Sol committed Apr 18, 2024
    Configuration menu
    Copy the full SHA
    95f9281 View commit details
    Browse the repository at this point in the history

  5. minor

    @Alexander-Sol
    Alexander-Sol committed Apr 18, 2024
    Configuration menu
    Copy the full SHA
    e6294a9 View commit details
    Browse the repository at this point in the history

  6. fixed merge conflicts

    @Alexander-Sol
    Alexander-Sol committed Apr 18, 2024
    Configuration menu
    Copy the full SHA
    1fe4112 View commit details
    Browse the repository at this point in the history

Commits on Apr 22, 2024

  1. Merged in important parts from MbrDoubleCheck

    @Alexander-Sol
    Alexander-Sol committed Apr 22, 2024
    Configuration menu
    Copy the full SHA
    9ab8a1b View commit details
    Browse the repository at this point in the history

  2. Changed decoy peak pairing

    @Alexander-Sol
    Alexander-Sol committed Apr 22, 2024
    Configuration menu
    Copy the full SHA
    0e92cf2 View commit details
    Browse the repository at this point in the history

Commits on Apr 23, 2024

  1. finished update

    @Alexander-Sol
    Alexander-Sol committed Apr 23, 2024
    Configuration menu
    Copy the full SHA
    d845eda View commit details
    Browse the repository at this point in the history

  2. Updated anchors

    @Alexander-Sol
    Alexander-Sol committed Apr 23, 2024
    Configuration menu
    Copy the full SHA
    9e25e98 View commit details
    Browse the repository at this point in the history

Commits on Apr 24, 2024

  1. MbrThresholdAsParam

    @Alexander-Sol
    Alexander-Sol committed Apr 24, 2024
    Configuration menu
    Copy the full SHA
    ac64e44 View commit details
    Browse the repository at this point in the history

  2. Prevented decoys from being used for protein quant

    @Alexander-Sol
    Alexander-Sol committed Apr 24, 2024
    Configuration menu
    Copy the full SHA
    d56cf8a View commit details
    Browse the repository at this point in the history

Commits on Apr 25, 2024

  1. minor

    @Alexander-Sol
    Alexander-Sol committed Apr 25, 2024
    Configuration menu
    Copy the full SHA
    4d2c1ac View commit details
    Browse the repository at this point in the history

Commits on Apr 26, 2024

  1. Deleted MSMS double check, changed scoring algo (removed intensity)

    @Alexander-Sol
    Alexander-Sol committed Apr 26, 2024
    Configuration menu
    Copy the full SHA
    53f7c78 View commit details
    Browse the repository at this point in the history

  2. reverted scoring function

    @Alexander-Sol
    Alexander-Sol committed Apr 26, 2024
    Configuration menu
    Copy the full SHA
    b1d4920 View commit details
    Browse the repository at this point in the history

  3. Fixed issue where decoy peaks were being used to calculate peptide in… 

    …tensities
    @Alexander-Sol
    Alexander-Sol committed Apr 26, 2024
    Configuration menu
    Copy the full SHA
    a20d625 View commit details
    Browse the repository at this point in the history

Commits on Apr 27, 2024

  1. Fixed issue where low scoring peak traces could overwrite intensity v… 

    …alues in MBR
    @Alexander-Sol
    Alexander-Sol committed Apr 27, 2024
    Configuration menu
    Copy the full SHA
    bd50ef6 View commit details
    Browse the repository at this point in the history

Commits on Apr 28, 2024

  1. Removed minimum for RT window

    @Alexander-Sol
    Alexander-Sol committed Apr 28, 2024
    Configuration menu
    Copy the full SHA
    7e098b5 View commit details
    Browse the repository at this point in the history

Commits on May 6, 2024

  1. minor

    @Alexander-Sol
    Alexander-Sol committed May 6, 2024
    Configuration menu
    Copy the full SHA
    2a86c6e View commit details
    Browse the repository at this point in the history

Commits on May 16, 2024

  1. Fixed issue where MbrScorer would crash if too few anchor peptides pa… 

    …irs were passed in
    @Alexander-Sol
    Alexander-Sol committed May 16, 2024
    Configuration menu
    Copy the full SHA
    e13ff2f View commit details
    Browse the repository at this point in the history

Commits on May 25, 2024

  1. Finished test structure to use for creating censored mzMls

    @Alexander-Sol
    Alexander-Sol committed May 25, 2024
    Configuration menu
    Copy the full SHA
    ea8e9e2 View commit details
    Browse the repository at this point in the history

Commits on May 27, 2024

  1. Started and failed fragger stuff

    @Alexander-Sol
    Alexander-Sol committed May 27, 2024
    Configuration menu
    Copy the full SHA
    8df00ed View commit details
    Browse the repository at this point in the history

Commits on Jun 4, 2024

  1. minor

    @Alexander-Sol
    Alexander-Sol committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    65f8757 View commit details
    Browse the repository at this point in the history

  2. Added fragger experiment class

    @Alexander-Sol
    Alexander-Sol committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    30c8aef View commit details
    Browse the repository at this point in the history

Commits on Jun 10, 2024

  1. Minor

    @Alexander-Sol
    Alexander-Sol committed Jun 10, 2024
    Configuration menu
    Copy the full SHA
    b2c210c View commit details
    Browse the repository at this point in the history

Commits on Jun 12, 2024

  1. MaxQuant Reader started

    @Alexander-Sol
    Alexander-Sol committed Jun 12, 2024
    Configuration menu
    Copy the full SHA
    ec43c93 View commit details
    Browse the repository at this point in the history

  2. Merge branch 'master' into censorMzml

    @Alexander-Sol
    Alexander-Sol committed Jun 12, 2024
    Configuration menu
    Copy the full SHA
    38f28bc View commit details
    Browse the repository at this point in the history

  3. Fixed omics issue. Finished MaxQuantEvidence

    @Alexander-Sol
    Alexander-Sol committed Jun 12, 2024
    Configuration menu
    Copy the full SHA
    054120d View commit details
    Browse the repository at this point in the history

Commits on Jun 17, 2024

  1. Added maxQuantEvidence, MqResultsFile, got it working

    @Alexander-Sol
    Alexander-Sol committed Jun 17, 2024
    Configuration menu
    Copy the full SHA
    2caaa59 View commit details
    Browse the repository at this point in the history

Commits on Jun 19, 2024

  1. minor

    @Alexander-Sol
    Alexander-Sol committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    3dfa3f2 View commit details
    Browse the repository at this point in the history

  2. minor

    @Alexander-Sol
    Alexander-Sol committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    c3e2dd5 View commit details
    Browse the repository at this point in the history

Commits on Jun 20, 2024

  1. changed nuspec

    @Alexander-Sol
    Alexander-Sol committed Jun 20, 2024
    Configuration menu
    Copy the full SHA
    a151c8c View commit details
    Browse the repository at this point in the history

Commits on Jun 22, 2024

  1. minor

    @Alexander-Sol
    Alexander-Sol committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    909a668 View commit details
    Browse the repository at this point in the history

  2. Added renomalization function to FlashLFQ results, incremented nuspec

    @Alexander-Sol
    Alexander-Sol committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    655df38 View commit details
    Browse the repository at this point in the history

Commits on Jul 1, 2024

  1. minor

    @Alexander-Sol
    Alexander-Sol committed Jul 1, 2024
    Configuration menu
    Copy the full SHA
    ba1f361 View commit details
    Browse the repository at this point in the history

Commits on Jul 3, 2024

  1. idk

    @Alexander-Sol
    Alexander-Sol committed Jul 3, 2024
    Configuration menu
    Copy the full SHA
    8131466 View commit details
    Browse the repository at this point in the history

Commits on Jul 8, 2024

  1. minor

    @Alexander-Sol
    Alexander-Sol committed Jul 8, 2024
    Configuration menu
    Copy the full SHA
    88be9cb View commit details
    Browse the repository at this point in the history

Commits on Jul 10, 2024

  1. Deleted unrelated changes

    @Alexander-Sol
    Alexander-Sol committed Jul 10, 2024
    Configuration menu
    Copy the full SHA
    9ef8b23 View commit details
    Browse the repository at this point in the history

  2. Added FraggerMasterFile

    @Alexander-Sol
    Alexander-Sol committed Jul 10, 2024
    Configuration menu
    Copy the full SHA
    1740c73 View commit details
    Browse the repository at this point in the history

  3. Fixed conflicts

    @Alexander-Sol
    Alexander-Sol committed Jul 10, 2024
    Configuration menu
    Copy the full SHA
    fa92a3a View commit details
    Browse the repository at this point in the history

  4. fixed errors introduced by merge

    @Alexander-Sol
    Alexander-Sol committed Jul 10, 2024
    Configuration menu
    Copy the full SHA
    4a4e4a7 View commit details
    Browse the repository at this point in the history

  5. idk

    @Alexander-Sol
    Alexander-Sol committed Jul 10, 2024
    Configuration menu
    Copy the full SHA
    d2b4cdd View commit details
    Browse the repository at this point in the history

  6. Changing parameters

    @Alexander-Sol
    Alexander-Sol committed Jul 10, 2024
    Configuration menu
    Copy the full SHA
    c1a15ad View commit details
    Browse the repository at this point in the history

Commits on Jul 11, 2024

  1. about to break things

    @Alexander-Sol
    Alexander-Sol committed Jul 11, 2024
    Configuration menu
    Copy the full SHA
    a48e5af View commit details
    Browse the repository at this point in the history

  2. Implemented better PIP donor selection

    @Alexander-Sol
    Alexander-Sol committed Jul 11, 2024
    Configuration menu
    Copy the full SHA
    017e932 View commit details
    Browse the repository at this point in the history

  3. Implemented PEP, and it's working

    @Alexander-Sol
    Alexander-Sol committed Jul 11, 2024
    Configuration menu
    Copy the full SHA
    15255f7 View commit details
    Browse the repository at this point in the history

  4. Included ML.NET in nuspec

    @Alexander-Sol
    Alexander-Sol committed Jul 11, 2024
    Configuration menu
    Copy the full SHA
    2518e63 View commit details
    Browse the repository at this point in the history

  5. idk

    @Alexander-Sol
    Alexander-Sol committed Jul 11, 2024
    Configuration menu
    Copy the full SHA
    c3c5c2a View commit details
    Browse the repository at this point in the history

Commits on Jul 12, 2024

  1. Semi-supervised PEP

    @Alexander-Sol
    Alexander-Sol committed Jul 12, 2024
    Configuration menu
    Copy the full SHA
    36087fe View commit details
    Browse the repository at this point in the history

  2. Retrain within splits

    @Alexander-Sol
    Alexander-Sol committed Jul 12, 2024
    Configuration menu
    Copy the full SHA
    ff7338e View commit details
    Browse the repository at this point in the history

Commits on Jul 13, 2024

  1. Working

    @Alexander-Sol
    Alexander-Sol committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    5838238 View commit details
    Browse the repository at this point in the history

  2. Added donor groups, pep is working

    @Alexander-Sol
    Alexander-Sol committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    05f47b4 View commit details
    Browse the repository at this point in the history

  3. Multiple peaks per donor

    @Alexander-Sol
    Alexander-Sol committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    f4e843a View commit details
    Browse the repository at this point in the history

  4. Switched to 514, single donor training

    @Alexander-Sol
    Alexander-Sol committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    e398a75 View commit details
    Browse the repository at this point in the history

  5. fixed merge conflicts

    @Alexander-Sol
    Alexander-Sol committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    0ad40ca View commit details
    Browse the repository at this point in the history

Commits on Jul 15, 2024

  1. mzLib 315

    @Alexander-Sol
    Alexander-Sol committed Jul 15, 2024
    Configuration menu
    Copy the full SHA
    c1c6c49 View commit details
    Browse the repository at this point in the history

  2. mzLib 315 for real

    @Alexander-Sol
    Alexander-Sol committed Jul 15, 2024
    Configuration menu
    Copy the full SHA
    a08ab94 View commit details
    Browse the repository at this point in the history

Commits on Jul 16, 2024

  1. Commit before decoy pairing

    @Alexander-Sol
    Alexander-Sol committed Jul 16, 2024
    Configuration menu
    Copy the full SHA
    db57bca View commit details
    Browse the repository at this point in the history

  2. Creating groups by decoy count only

    @Alexander-Sol
    Alexander-Sol committed Jul 16, 2024
    Configuration menu
    Copy the full SHA
    2c13204 View commit details
    Browse the repository at this point in the history

Commits on Jul 17, 2024

  1. idk

    @Alexander-Sol
    Alexander-Sol committed Jul 17, 2024
    Configuration menu
    Copy the full SHA
    d713cb3 View commit details
    Browse the repository at this point in the history

Commits on Jul 18, 2024

  1. Implemented cursed algorithm for donorGroup partitioning

    @Alexander-Sol
    Alexander-Sol committed Jul 18, 2024
    Configuration menu
    Copy the full SHA
    05b2d37 View commit details
    Browse the repository at this point in the history

  2. mzLib 324

    @Alexander-Sol
    Alexander-Sol committed Jul 18, 2024
    Configuration menu
    Copy the full SHA
    64394cf View commit details
    Browse the repository at this point in the history

  3. mzLib 5.326

    @Alexander-Sol
    Alexander-Sol committed Jul 18, 2024
    Configuration menu
    Copy the full SHA
    0a41776 View commit details
    Browse the repository at this point in the history

Commits on Jul 19, 2024

  1. 327

    @Alexander-Sol
    Alexander-Sol committed Jul 19, 2024
    Configuration menu
    Copy the full SHA
    a9f37e7 View commit details
    Browse the repository at this point in the history

  2. mzLib 328

    @Alexander-Sol
    Alexander-Sol committed Jul 19, 2024
    Configuration menu
    Copy the full SHA
    e6e69a1 View commit details
    Browse the repository at this point in the history

Commits on Jul 23, 2024

  1. mzLib 329

    @Alexander-Sol
    Alexander-Sol committed Jul 23, 2024
    Configuration menu
    Copy the full SHA
    aa31815 View commit details
    Browse the repository at this point in the history

Commits on Aug 1, 2024

  1. nuspec

    @Alexander-Sol
    Alexander-Sol committed Aug 1, 2024
    Configuration menu
    Copy the full SHA
    28adaf0 View commit details
    Browse the repository at this point in the history

Commits on Aug 19, 2024

  1. Updates to window width calculations

    @Alexander-Sol
    Alexander-Sol committed Aug 19, 2024
    Configuration menu
    Copy the full SHA
    caa785c View commit details
    Browse the repository at this point in the history

  2. More changes to window width calculations

    @Alexander-Sol
    Alexander-Sol committed Aug 19, 2024
    Configuration menu
    Copy the full SHA
    c2fe951 View commit details
    Browse the repository at this point in the history

Commits on Aug 20, 2024

  1. nuspec update

    @Alexander-Sol
    Alexander-Sol committed Aug 20, 2024
    Configuration menu
    Copy the full SHA
    19e1e3c View commit details
    Browse the repository at this point in the history

Commits on Aug 31, 2024

  1. reverted donor exclusion window stuff

    @Alexander-Sol
    Alexander-Sol committed Aug 31, 2024
    Configuration menu
    Copy the full SHA
    a6272c3 View commit details
    Browse the repository at this point in the history

Commits on Sep 20, 2024

  1. Merge conflicts not quite fixed

    @Alexander-Sol
    Alexander-Sol committed Sep 20, 2024
    Configuration menu
    Copy the full SHA
    6aee163 View commit details
    Browse the repository at this point in the history

  2. Fixing merge conflicts one at a time

    @Alexander-Sol
    Alexander-Sol committed Sep 20, 2024
    Configuration menu
    Copy the full SHA
    f562982 View commit details
    Browse the repository at this point in the history

  3. minor

    @Alexander-Sol
    Alexander-Sol committed Sep 20, 2024
    Configuration menu
    Copy the full SHA
    d891c5e View commit details
    Browse the repository at this point in the history

  4. Fixed errors, deleted tests with local file refs

    @Alexander-Sol
    Alexander-Sol committed Sep 20, 2024
    Configuration menu
    Copy the full SHA
    9aff2de View commit details
    Browse the repository at this point in the history

Commits on Sep 22, 2024

  1. Merged master into Pip-ECHO FlashLFQ, fixed all the issues that arose.

    @Alexander-Sol
    Alexander-Sol committed Sep 22, 2024
    Configuration menu
    Copy the full SHA
    dcaff0c View commit details
    Browse the repository at this point in the history

Commits on Sep 23, 2024

  1. Reverted unneccessary changes

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    fb19c3f View commit details
    Browse the repository at this point in the history

  2. minor

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    1507ee7 View commit details
    Browse the repository at this point in the history

  3. minor

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    6b16ade View commit details
    Browse the repository at this point in the history

  4. minor

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    4aafb5c View commit details
    Browse the repository at this point in the history

  5. Pep engine no longer static

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    7c33a6d View commit details
    Browse the repository at this point in the history

  6. MlContext Seed

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    9a8f683 View commit details
    Browse the repository at this point in the history

  7. xyz

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    a09ee9c View commit details
    Browse the repository at this point in the history

  8. messed with the .yml

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    26d8c27 View commit details
    Browse the repository at this point in the history

  9. More logs

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    e81a75f View commit details
    Browse the repository at this point in the history

  10. Even more logs

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    14652c9 View commit details
    Browse the repository at this point in the history

  11. dsf

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    7e5d0f0 View commit details
    Browse the repository at this point in the history

  12. One million logs

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    8e37695 View commit details
    Browse the repository at this point in the history

  13. thread safe rng

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    c518a74 View commit details
    Browse the repository at this point in the history

  14. Fixed random issue, tests are passing

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    acde585 View commit details
    Browse the repository at this point in the history

  15. More lgos

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    d9b0697 View commit details
    Browse the repository at this point in the history

  16. Stabilized results?

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    b024068 View commit details
    Browse the repository at this point in the history

  17. Fixed issues

    @Alexander-Sol
    Alexander-Sol committed Sep 23, 2024
    Configuration menu
    Copy the full SHA
    661bb36 View commit details
    Browse the repository at this point in the history

Commits on Sep 24, 2024

  1. Deleted unused properties, changed ChromatographicPeak tostring

    @Alexander-Sol
    Alexander-Sol committed Sep 24, 2024
    Configuration menu
    Copy the full SHA
    b11721e View commit details
    Browse the repository at this point in the history

  2. Removed unintended changes

    @Alexander-Sol
    Alexander-Sol committed Sep 24, 2024
    Configuration menu
    Copy the full SHA
    b0634d6 View commit details
    Browse the repository at this point in the history

Commits on Oct 1, 2024

  1. started refactor

    @Alexander-Sol
    Alexander-Sol committed Oct 1, 2024
    Configuration menu
    Copy the full SHA
    dbe394a View commit details
    Browse the repository at this point in the history

  2. Commit before breaking things

    @Alexander-Sol
    Alexander-Sol committed Oct 1, 2024
    Configuration menu
    Copy the full SHA
    ce1a3d3 View commit details
    Browse the repository at this point in the history

  3. Refactored donorGroup equalization, added test

    @Alexander-Sol
    Alexander-Sol committed Oct 1, 2024
    Configuration menu
    Copy the full SHA
    2a03fb2 View commit details
    Browse the repository at this point in the history

Commits on Oct 3, 2024

  1. Finished tests for Pip-ECHO

    @Alexander-Sol
    Alexander-Sol committed Oct 3, 2024
    Configuration menu
    Copy the full SHA
    c1943b1 View commit details
    Browse the repository at this point in the history

  2. Added more unit tests, addressed Shortreed's comments

    @Alexander-Sol
    Alexander-Sol committed Oct 3, 2024
    Configuration menu
    Copy the full SHA
    fc596d7 View commit details
    Browse the repository at this point in the history

  3. Reverted changes to github actions .yml, updated MicrosoftML

    @Alexander-Sol
    Alexander-Sol committed Oct 3, 2024
    Configuration menu
    Copy the full SHA
    3bfff45 View commit details
    Browse the repository at this point in the history

Commits on Oct 4, 2024

  1. Update dotnet.yml

    @Alexander-Sol
    Alexander-Sol authored Oct 4, 2024
    Configuration menu
    Copy the full SHA
    439a7a7 View commit details
    Browse the repository at this point in the history

Commits on Oct 15, 2024

  1. Updated comments

    @Alexander-Sol
    Alexander-Sol committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    ccb63d4 View commit details
    Browse the repository at this point in the history

  2. Revert nuspec

    @Alexander-Sol
    Alexander-Sol committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    6fd02c9 View commit details
    Browse the repository at this point in the history

  3. Merge branch 'master' into MbrPart2

    @Alexander-Sol
    Alexander-Sol committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    c0bad3d View commit details
    Browse the repository at this point in the history

  4. Edited realDataMbr test to account for change to MbrScorer

    @Alexander-Sol
    Alexander-Sol committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    d404107 View commit details
    Browse the repository at this point in the history

  5. More changes to tests

    @Alexander-Sol
    Alexander-Sol committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    0ed3f53 View commit details
    Browse the repository at this point in the history

Commits on Oct 24, 2024

  1. Minor

    @Alexander-Sol
    Alexander-Sol committed Oct 24, 2024
    Configuration menu
    Copy the full SHA
    0aa86f2 View commit details
    Browse the repository at this point in the history

  2. Reverted unnecessary changes

    @Alexander-Sol
    Alexander-Sol committed Oct 24, 2024
    Configuration menu
    Copy the full SHA
    46cc07f View commit details
    Browse the repository at this point in the history

Commits on Oct 29, 2024

  1. Merge branch 'master' into MbrPart2

    @trishorts
    trishorts authored Oct 29, 2024
    Configuration menu
    Copy the full SHA
    b437039 View commit details
    Browse the repository at this point in the history

  2. added additional comments

    @Alexander-Sol
    Alexander-Sol committed Oct 29, 2024
    Configuration menu
    Copy the full SHA
    3f4dada View commit details
    Browse the repository at this point in the history

  3. Merge branch 'MbrPart2' of https://github.com/Alexander-Sol/mzLib int… 

    …o MbrPart2
    @Alexander-Sol
    Alexander-Sol committed Oct 29, 2024
    Configuration menu
    Copy the full SHA
    d8f3b9c View commit details
    Browse the repository at this point in the history

Commits on Oct 30, 2024

  1. Merge branch 'master' into MbrPart2

    @trishorts
    trishorts authored Oct 30, 2024
    Configuration menu
    Copy the full SHA
    bc98a83 View commit details
    Browse the repository at this point in the history

  2. Merge branch 'master' into MbrPart2

    @trishorts
    trishorts authored Oct 30, 2024
    Configuration menu
    Copy the full SHA
    ddaf0b5 View commit details
    Browse the repository at this point in the history

Commits on Nov 1, 2024

  1. More comments

    @Alexander-Sol
    Alexander-Sol committed Nov 1, 2024
    Configuration menu
    Copy the full SHA
    cbe7eee View commit details
    Browse the repository at this point in the history

  2. Merge branch 'MbrPart2' of https://github.com/Alexander-Sol/mzLib int… 

    …o MbrPart2
    @Alexander-Sol
    Alexander-Sol committed Nov 1, 2024
    Configuration menu
    Copy the full SHA
    af6490e View commit details
    Browse the repository at this point in the history

Commits on Nov 4, 2024

  1. Fixed nuspec

    @Alexander-Sol
    Alexander-Sol committed Nov 4, 2024
    Configuration menu
    Copy the full SHA
    a3720b7 View commit details
    Browse the repository at this point in the history