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A collection of (mostly for bioinformatics) scripts

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NIM_playground
NIM_playground
 
 
Qt_test
Qt_test
 
 
StrucVarDB
StrucVarDB
 
 
bkp
bkp
 
 
dice_test.build
dice_test.build
 
 
hpc
hpc
 
 
local
local
 
 
.DS_Store
.DS_Store
 
 
.gitignore
.gitignore
 
 
Bokeh_streaming_plots.ipynb
Bokeh_streaming_plots.ipynb
 
 
Ensembl_Client.py
Ensembl_Client.py
 
 
Ensembl_Methods.py
Ensembl_Methods.py
 
 
Find_RE_cutting_2_plasmids.ipynb
Find_RE_cutting_2_plasmids.ipynb
 
 
FormatInput.py
FormatInput.py
 
 
FormatInput_2.py
FormatInput_2.py
 
 
FusionGene_spreadsheet_formatter.py
FusionGene_spreadsheet_formatter.py
 
 
FusionGenes_Annotation.pl
FusionGenes_Annotation.pl
 
 
FusionGenes_Prediction.pl
FusionGenes_Prediction.pl
 
 
GuideToOligo.py
GuideToOligo.py
 
 
LICENSE
LICENSE
 
 
NetworkX.ipynb
NetworkX.ipynb
 
 
PCR_simulator.ipynb
PCR_simulator.ipynb
 
 
Qt_plotting.ipynb
Qt_plotting.ipynb
 
 
README.md
README.md
 
 
ale.py
ale.py
 
 
ale_amin_compare.txt
ale_amin_compare.txt
 
 
alefuncs.py
alefuncs.py
 
 
amof.py
amof.py
 
 
argparse_template.py
argparse_template.py
 
 
asyncServer.py
asyncServer.py
 
 
blast.py
blast.py
 
 
bokeh_app.py
bokeh_app.py
 
 
canvas_demo.py
canvas_demo.py
 
 
client.py
client.py
 
 
compare.py
compare.py
 
 
cyclomics_pipe_step_by_step.txt
cyclomics_pipe_step_by_step.txt
 
 
data_ranges.ipynb
data_ranges.ipynb
 
 
deap_test.py
deap_test.py
 
 
dice_test.py
dice_test.py
 
 
dice_test_cy.pyx
dice_test_cy.pyx
 
 
dice_test_nim.nim
dice_test_nim.nim
 
 
download_sequences_from_ensembl.ipynb
download_sequences_from_ensembl.ipynb
 
 
fpGrowth.py
fpGrowth.py
 
 
genes_from_breakpoints.py
genes_from_breakpoints.py
 
 
genes_from_intervals.py
genes_from_intervals.py
 
 
genome_in_a_list.ipynb
genome_in_a_list.ipynb
 
 
get_all_healthy_breakpoints.pl
get_all_healthy_breakpoints.pl
 
 
get_domains2.pl
get_domains2.pl
 
 
get_exons_coord.py
get_exons_coord.py
 
 
guide_to_oligos.ipynb
guide_to_oligos.ipynb
 
 
install_blastdb.py
install_blastdb.py
 
 
mytext.txt
mytext.txt
 
 
nncollection.py
nncollection.py
 
 
notebook.tex
notebook.tex
 
 
output.xml
output.xml
 
 
output_1_0.png
output_1_0.png
 
 
output_2_0.png
output_2_0.png
 
 
overlap_test.py
overlap_test.py
 
 
parse-ncbi-geneinfo.py
parse-ncbi-geneinfo.py
 
 
pyensembl_NCBI_sequence_query.py
pyensembl_NCBI_sequence_query.py
 
 
qt_plot_test.py
qt_plot_test.py
 
 
received_file.txt
received_file.txt
 
 
repeat.py
repeat.py
 
 
run_dice_test_cy.py
run_dice_test_cy.py
 
 
run_dice_test_cy.py.save
run_dice_test_cy.py.save
 
 
sbar.py
sbar.py
 
 
scoop_test.py
scoop_test.py
 
 
sequence.fasta
sequence.fasta
 
 
server.py
server.py
 
 
setup.py
setup.py
 
 
smooth_game_of_life.py
smooth_game_of_life.py
 
 
spectre_example_implementation.c
spectre_example_implementation.c
 
 
stabflex3.py
stabflex3.py
 
 
start_jupyter.py
start_jupyter.py
 
 
tcp-cli.py
tcp-cli.py
 
 
tcp-srv.py
tcp-srv.py
 
 
tcplib.py
tcplib.py
 
 
uninstall_brew.sh
uninstall_brew.sh
 
 
update_blastdb.pl
update_blastdb.pl
 
 

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scripts

a bunch of scripts I wrote during my Postdoc at the UMCU

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A collection of (mostly for bioinformatics) scripts

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