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42 Open 282 Closed
42 Open 282 Closed
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Issues list

Potential for temp_dir to not exist during add_matched_rna
#473 opened May 2, 2023 by bryce-turner
Tumor Normal Filtering
#472 opened Mar 17, 2023 by PedalheadPHX
Samtools markdup stats summary takes only one library
#469 opened Sep 8, 2022 by denriquez
call consensus threads
#465 opened Jul 31, 2022 by PedalheadPHX
1
Second Metrics file for archive
#464 opened Jul 30, 2022 by PedalheadPHX
File for archive
#463 opened Jul 30, 2022 by PedalheadPHX
bwa-mem2
#462 opened Jul 30, 2022 by PedalheadPHX
GRCh38 difficult regions
#460 opened Feb 16, 2022 by PedalheadPHX
1
Update deepvariant to at least v1.0.0
#455 opened Oct 14, 2021 by bryce-turner
Wasted Compute
#454 opened Aug 23, 2021 by PedalheadPHX
Add IMGT VDJ reference to CellRanger Analysis
#453 opened Aug 13, 2021 by ekelley903
1
gatk_cnv step 3 has the potential of attempting to interpret log2 of 0
#452 opened Aug 12, 2021 by bryce-turner
@bryce-turner
Constitutional GATK CNV seg file in symbolic links
#451 opened Aug 11, 2021 by PedalheadPHX
3
GATK CNNscore produces empty VCF bug Something isn't working
#450 opened Aug 11, 2021 by PedalheadPHX
@bryce-turner
1
GaMMiT reduction of frag_count in updated script
#447 opened Aug 4, 2021 by bryce-turner
@bryce-turner
1
mutation_burden format for stats2json and stats2lims
#426 opened Jul 7, 2021 by bryce-turner
@bryce-turner
No Duplicate stats in LIMS for BAMs with multiple Libraries
#421 opened May 31, 2021 by PedalheadPHX
Question: CSI index on VCF
#419 opened Apr 12, 2021 by PedalheadPHX
Error in plotCNVplus when there are less than two hets to run geom_density on. bug Something isn't working
#417 opened Apr 1, 2021 by awchrist
@awchrist
Assay Pairing Control Improvement enhancement New feature or request
#416 opened Mar 30, 2021 by PedalheadPHX
Add FastQScreen
#407 opened Mar 10, 2021 by bryce-turner
add threads to samtools index command
#396 opened Jan 15, 2021 by ChristopheLegendre
2
NEW glType and glPrep = SpatialRNA enhancement New feature or request
#391 opened Nov 23, 2020 by PedalheadPHX
Tunable Tool Usage
#387 opened Oct 23, 2020 by bryce-turner
@bryce-turner
Samtools markdup hits walltime with high depth regions
#386 opened Oct 6, 2020 by denriquez
5
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