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sigven
/
pcgr
Personal Cancer Genome Reporter (PCGR)
https://sigven.github.io/pcgr
MIT License
251
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Small fixes
#200
pdiakumis
closed
1 year ago
0
Use bcftools for initial VCF parsing
#199
pdiakumis
closed
1 year ago
0
Question re. reproducing the example VCF file
#198
BarryDigby
closed
1 month ago
7
Update changelog with v1.1.0 changes
#197
pdiakumis
closed
1 year ago
0
fix for CLI argument "cna_overlap_pct"
#196
niklasmueboe
closed
1 year ago
1
post-link script failed for package `bioconda::bioconductor-genomeinfodbdata-1.2.7-r41hdfd78af_1`
#195
pdiakumis
closed
1 year ago
3
Minor refactor
#194
pdiakumis
closed
2 years ago
0
Remove docker command wrappers; CPSR refactor
#193
pdiakumis
closed
2 years ago
1
Doc/log/action improvements
#192
pdiakumis
closed
2 years ago
4
Fix "desc() must be called with exactly one argument" in report gen
#191
daniel-nebdal
closed
2 years ago
2
doc/changelog update
#190
sigven
closed
2 years ago
0
strip JSON only for PCGR
#189
sigven
closed
2 years ago
0
More efficient handling of huge input VCFs
#188
sigven
closed
2 years ago
0
'names' attribute [20] must be the same length as the vector [18]
#187
YingYa
closed
2 years ago
2
1.0.0 release
#186
sigven
closed
2 years ago
0
Primary Tumor Sites table
#185
pdiakumis
closed
2 years ago
0
Output doc cleanup
#184
pdiakumis
closed
2 years ago
0
Feature: use single conda environment for PCGR
#183
pdiakumis
opened
2 years ago
0
Refactor pcgr/utils.py
#182
pdiakumis
closed
2 years ago
0
Use os.path.normpath for conda prefix
#181
pdiakumis
closed
2 years ago
0
PCGR 0.10.15 error
#180
tinavisnovska
closed
2 years ago
10
ALT allele "-" in civic.vcf.gz
#179
ddrichel
closed
2 years ago
3
PCGR error
#178
adbeggs
closed
2 years ago
21
cyvcf2 not bundled with latest pcgr vesion
#177
adbeggs
closed
2 years ago
3
PCGR data bundle is not compliant with the software version
#176
adbeggs
closed
2 years ago
3
Simple installation + developer docs
#175
pdiakumis
closed
2 years ago
0
Fix tagging
#174
pdiakumis
closed
2 years ago
0
Add installation helper scripts
#173
pdiakumis
closed
2 years ago
0
CPSR versioning
#172
pdiakumis
closed
2 years ago
0
CPSR fixes
#171
pdiakumis
closed
2 years ago
0
Documentation with pkgdown
#170
pdiakumis
closed
2 years ago
0
Error: Column `intogen_drivers` not found in `.data`
#169
YingYa
closed
2 years ago
1
CPSR restructure
#168
pdiakumis
closed
2 years ago
0
Linux fixes
#167
pdiakumis
closed
2 years ago
0
Run GH Actions without PR
#166
pdiakumis
closed
2 years ago
0
GitHub Action for Docker image build
#165
pdiakumis
closed
2 years ago
0
GH Actions: update conda locks
#164
github-actions[bot]
closed
2 years ago
0
GH Actions: update conda locks
#163
github-actions[bot]
closed
2 years ago
0
Add GitHub Action for conda lock
#162
pdiakumis
closed
2 years ago
0
GitHub Action for building and uploading conda packages
#161
pdiakumis
closed
2 years ago
0
Added bump2version
#160
pdiakumis
closed
2 years ago
0
Conda build changes and using conda-lock
#159
pdiakumis
closed
2 years ago
0
Add new installation instructions
#158
pdiakumis
closed
2 years ago
0
error indexing : [E::hts_idx_push] Chromosome blocks not continuous tbx_index_build failed: /workdir/output/91848.pcgr_ready.vcf.gz
#157
vaishmanobala
closed
2 years ago
6
Update Rscript pcgrr.R paths
#156
pdiakumis
closed
2 years ago
0
Remove VCF validation
#155
pdiakumis
closed
2 years ago
0
New Dockerfile
#154
pdiakumis
closed
2 years ago
0
Conda updates
#153
pdiakumis
closed
2 years ago
0
Add conda recipes
#152
pdiakumis
closed
2 years ago
0
[R] R package cleanup
#151
pdiakumis
closed
2 years ago
0
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