Releases: lskatz/lyve-SET
More stable; better documentation; better installation; more modular
Easier install; more stable; logging enables; defaults for snpcaller and msa-creator changed
Commits on Aug 25, 2014
Lee Katz - Aspen readme shows defaults for project and ref better a363cce
Lee Katz - Aspen added log directory 929bf69
Lee Katz - Aspen added log directory 6de9615
Lee Katz - Aspen matrix is now being made from pairwise 63f51a1
Lee Katz lskatz numcpus option aca5c2f
Lee Katz lskatz make check 539cc20
Lee Katz lskatz find and replace lengthy filenames in the lowmem alignment 0966be7
Lee Katz lskatz abs path to input file for raxml bcd026c
Lee Katz lskatz removed module that wasn't needed 1e83c8d
Commits on Aug 26, 2014
Lee Katz - Aspen Merge branch 'master' of https://github.com/lskatz/lyve-SET 9d3bf42
Lee Katz - Aspen lowmem now has the allowedflanking parameter; default is now set to 1… … 57880a4
Lee Katz - Aspen set the default to lowmem MSA creation. Fixed a bug that help doesn't… … 559a7ee
Commits on Aug 27, 2014
Lee Katz - Aspen added logging but it could be probably better 334e06e
Lee Katz - Aspen need shuffleReads 10ffb07
Lee Katz - Aspen setting the job names correctly 2720c7c
Commits on Aug 28, 2014
Lee Katz - Aspen added author info; added TODO for outgroup 2e294e4
Lee Katz - Aspen added outgroup parameter 08e9d84
Lee Katz - Aspen depth of coverage corrected in the callsam option da30b8b
Lee Katz - Aspen vcf tools and vcf-sort dc2aa1f
Lee Katz - Aspen added Vcf.pm for any future parsing e11f444
Lee Katz - Aspen does not remove the tempdir now in case it is the project directory t… … ab66e78
Lee Katz - Aspen snp reference indexing e2348a5
Lee Katz - Aspen fixing snap and adding in a call for snapxl for longer reads 25a0fc6
Commits on Aug 29, 2014
Lee Katz lskatz added numcpus to the example ad72a45
Lee Katz lskatz better log for MSA creation 8c4d4e4
Lee Katz lskatz logging of processMsa.pl c076f9b
Lee Katz lskatz lowmem reads from filtered vcf now 7e3d493
Commits on Aug 31, 2014
Lee Katz lskatz fixed the temporary directory location e0ff32a
Lee Katz lskatz formatting choices on the makefile help
v0.8.2 release
v8.2 release
More usability
v0.8.1 fixed tar bug in makefile
More stable; better documentation; better installation; more modular
v0.8 added submodules
Version at which CFSAN and I compare notes
v0.7 better subroutines for PE detection