broadinstitute palantir-workflows issues

broadinstitute / palantir-workflows

Utility workflows for the DSP hydro.gen team (formerly palantir)

BSD 3-Clause "New" or "Revised" License

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issues

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add more customization to PCA tasks

#192 smgogarten closed 2 days ago
1
Python testing and linting

#191 kachulis opened 6 days ago
0
Fix whitespace in some recent changes

#190 rickymagner closed 6 days ago
0
Update various PRS related tasks with plink chromosome encodings

#189 kachulis closed 6 days ago
0
Scatter Glimpse Merge

#188 kachulis opened 2 weeks ago
0
Fix for ScoreBGE

#187 michaelgatzen closed 3 weeks ago
0
Test only WDLs with changed dependencies

#186 kachulis closed 4 weeks ago
3
Add final files: EBMs notebook and pipeline.wdl

#185 Eyad-Alqaysi opened 1 month ago
0
Testing only wdls with modified dependencies

#184 kachulis closed 3 weeks ago
2
Glimpse tests

#183 kachulis closed 2 weeks ago
0
Update vcfeval docker image

#182 rickymagner opened 1 month ago
0
Made changes to the output files/formats for compatibility with the d…

#181 kockan closed 1 month ago
1
Adding Glimpse2ImputationAndCheckQC wrapper WDL

#180 michaelgatzen closed 2 months ago
0
Testing overhaul

#179 kachulis closed 1 month ago
3
PRS Scoring Pipeline for BGE

#178 michaelgatzen closed 4 weeks ago
0
PRSQC WDL First Iteration

#177 kockan closed 3 months ago
1
Use watt for tests

#176 kachulis closed 3 months ago
2
Fix version parsing errors when building with pip

#175 kachulis closed 3 months ago
0
Keep stderr consistent for OOM checks in Glimpse pipeline

#174 kachulis closed 3 months ago
0
Glimpse/htslib retries & bug fix, and index specification

#173 kachulis closed 3 months ago
0
Hotfix: Update IGV xml writing docker to get benchmark tests passing

#172 kachulis closed 4 months ago
6
Fixed error in CreateAggregationSets when reading booleans as strings

#171 michaelgatzen closed 4 months ago
3
Remove cram localization, specify cram indices

#170 kachulis closed 4 months ago
0
AXIN hotfix

#169 kachulis closed 4 months ago
1
Remove cram localization in GLIMPSE phase

#168 kachulis closed 4 months ago
1
The Big Benchmarking PR

#167 rickymagner closed 2 weeks ago
9
Changing GLIMPSE to localize using samtools

#166 michaelgatzen closed 5 months ago
0
Update dashboards to use quickboard v0.4.0

#165 rickymagner closed 5 months ago
0
Implement FindSamplesAndBenchmark wrapper for SimpleBenchmark

#164 rickymagner closed 5 months ago
0
Update IntervalList2Bed to handle case of compressed interval file inputs

#163 rickymagner closed 5 months ago
0
Update CleanSVs and some typos in BenchmarkSVs

#162 rickymagner closed 5 months ago
0
Add Checkpointing and QC Collection to GlimpseImputation

#161 michaelgatzen closed 5 months ago
1
Pandas deprecated DataFrame.append

#160 kachulis closed 9 months ago
0
Add pipelines for benchmarking and cleaning SV VCFs

#159 rickymagner closed 9 months ago
0
Add CMRG interval files to our docs

#158 rickymagner closed 9 months ago
0
Automatic Novelty Detection/Flagging from PCA plots

#157 kockan closed 10 months ago
0
Add MatchFingerprints utility WDL

#156 rickymagner closed 10 months ago
2
Rewrite SimpleBenchmark and merge for staging before replacing BenchmarkVCFs

#155 rickymagner closed 10 months ago
0
Add utility for converting interval_list to bed efficiently

#154 rickymagner closed 11 months ago
0
Ordering issues in PCATasks.ProjectArray

#153 fabio-cunial closed 11 months ago
1
RAM allocation in plink2

#152 fabio-cunial opened 11 months ago
0
plink2 --set-all-var-ids in PCATasks.ArrayVcfToPlinkDataset

#151 fabio-cunial closed 6 days ago
1
Potential improvements regarding default thread numbers and disk sizes.

#150 kockan closed 12 months ago
0
Replace ${basename} with ~{basename} in PerformPCA

#149 fabio-cunial closed 12 months ago
1
Exposing the number of cores in PerformPopulationPCA

#148 fabio-cunial closed 12 months ago
1
Disk size in PerformPopulationPCA

#147 fabio-cunial closed 12 months ago
1
Single core tasks in PerformPopulationPCA

#146 fabio-cunial opened 1 year ago
0
Add utility for creating IGV session from list of bams, vcfs, intervals

#145 rickymagner closed 11 months ago
0
Dd toggle benchmark vc fs fingerprint

#144 ddsva1 closed 1 year ago
1
vcfdist evaluation

#143 ddsva1 closed 1 year ago
0