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Issues list

Make threshold for Froh calculations adjustable in configuration enhancement New feature or request
#1 opened Mar 1, 2022 by verku updated Mar 1, 2022
@verku
Add some basic statistics on GERP scores to pipeline report for threshold decisions enhancement New feature or request
#2 opened Mar 1, 2022 by verku updated Mar 1, 2022
@verku
Implement shadow rules for some rules (e.g. repeatmodeler) enhancement New feature or request
#3 opened Mar 1, 2022 by verku updated Oct 9, 2023
@verku
2
Double check if sorting of BAM and VCF files is strictly necessary enhancement New feature or request
#71 opened Jan 29, 2024 by verku updated Jan 30, 2024
@verku
Enable BAM and VCF files as input for GenErode enhancement New feature or request
#76 opened Apr 8, 2024 by verku updated Apr 8, 2024
@verku
Make it possible to use tab- or comma-separated metadata files enhancement New feature or request
#77 opened May 16, 2024 by verku updated Oct 9, 2024
@verku
Add subsampling depth to merged VCF file path name enhancement New feature or request
#78 opened Jun 12, 2024 by verku updated Oct 9, 2024
@verku
Update gerp_derived_alleles.py to work with phased genotypes enhancement New feature or request
#67 opened Jan 15, 2024 by verku updated Oct 10, 2024
@verku
ANGSD error estimation enhancement New feature or request
#70 opened Jan 23, 2024 by verku updated Oct 10, 2024
rule multiqc_historical_raw: Stuck on 'Searching' bug Something isn't working question Further information is requested
#49 opened May 12, 2023 by johannanvs updated Nov 11, 2024
13
Checklist for version release TEMPLATE next version Include this issue into the next pipeline version
#91 opened Nov 15, 2024 by verku updated Nov 15, 2024
8 tasks
@verku
Questions for GERP from bam files directly question Further information is requested
#85 opened Sep 27, 2024 by willright28 updated Nov 28, 2024
@verku
14
Add option to provide a BED file with regions to exclude from mlRho and VCF files enhancement New feature or request
#96 opened Dec 2, 2024 by verku updated Dec 2, 2024
@verku
Error in get_gerp_score_percentile.py and zero gerp scores bug Something isn't working next version Include this issue into the next pipeline version
#98 opened Dec 16, 2024 by saadarif updated Dec 19, 2024
@verku
1
Error in GERP analysis bug Something isn't working next version Include this issue into the next pipeline version
#97 opened Dec 9, 2024 by JuliusFalck updated Jan 27, 2025
@verku
11
fastp can get memory issues bug Something isn't working enhancement New feature or request next version Include this issue into the next pipeline version
#29 opened Sep 20, 2022 by verku updated Feb 12, 2025
@verku
1
Improvements to documentation documentation Improvements or additions to documentation
#101 opened Feb 17, 2025 by verku updated Feb 17, 2025
@verku
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