morinlab lab_scripts issues - Githubissues

morinlab / lab_scripts

Consolidated scripts used by the Morin lab

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issues

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augment_maf.py does not scale well to genomes

#15 rdmorin opened 7 years ago
3
Update to handle male patients

#14 sjessa closed 8 years ago
0
Updates to EXPANDS & PyClone scripts for Galaxy

#13 sjessa closed 8 years ago
0
Add ability to plot custom EXPANDS visualizations

#12 sjessa closed 8 years ago
0
Plots etc for cases with multiple samples given augmented MAFs

#11 sjessa closed 8 years ago
0
Add script & functions for plotting PyClone output

#10 sjessa closed 8 years ago
0
Add scripts to make input files for cBioPortal visualization tools

#9 sjessa closed 8 years ago
0
Update EXPANDS wrapper

#8 sjessa closed 8 years ago
0
t_depth need to be updated

#7 ghost closed 8 years ago
2
Eliminating the need for symlinking augment_maf

#6 BrunoGrandePhD closed 8 years ago
0
bamUtils.py: count_bases_pileup doesn't handle del or refskip reads

#5 dfornika closed 8 years ago
3
calc_capture_stats: Ensure that reads are never double-counted

#4 BrunoGrandePhD closed 9 years ago
0
calc_capture_stats: Exclude reads marked as duplicates

#3 BrunoGrandePhD closed 9 years ago
0
Parallelize BWA Makefile

#2 dfornika closed 9 years ago
0
Added three new scripts

#1 dfornika closed 10 years ago
0