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39 Open 408 Closed
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Issues list

Variation graph mapping enhancement New feature or request
#1132 opened Apr 14, 2025 by mattiassherman
DSL2 - Host-removal keeps adapters in [DISCUSSION?] DSL2
#1131 opened Apr 11, 2025 by merszym 3.0 Augsburg
@aidaanva
1
DSL2 remove or change bamfiltering_genomicbamfilterflag bug Something isn't working DSL2
#1130 opened Apr 11, 2025 by merszym 3.0 Augsburg
DSL2 - Genotyping on unmerged libraries DSL2 enhancement New feature or request
#1128 opened Mar 26, 2025 by ilight1542
@ilight1542
[test data] Human aligned bam testdataset still has SQ tags for non-existant fasta indices in corresponding fasta used bug Something isn't working needs upstream fix Needs a fix in the upstream tool project
#1127 opened Mar 26, 2025 by ilight1542
@TCLamnidis
JSON schema: Eager documentation
#1124 opened Mar 25, 2025 by jen-reeve
15 tasks
DSL2: test_nothing profile is broken bug Something isn't working
#1117 opened Feb 21, 2025 by TCLamnidis
2 tasks done
1
1
DSL2: New test config structure DSL2 enhancement New feature or request
#1103 opened Dec 20, 2024 by jfy133 3.0 Augsburg
1
@jfy133 @TCLamnidis
4
Edit distance plots for mapped reads enhancement New feature or request
#1101 opened Dec 6, 2024 by marcel-keller
1
DSL2: Options for different adapters for ssDNA and dsDNA libraries within the same run. DSL2 enhancement New feature or request
#1091 opened Oct 1, 2024 by TCLamnidis
1
DSL2: Add bamRefine as a damage manipulation alternative? enhancement New feature or request
#1087 opened Sep 19, 2024 by TCLamnidis
1
DSL2: Genotyping on multiple snp sets in one run? DSL2 enhancement New feature or request
#1077 opened Jun 21, 2024 by TCLamnidis 3.1 Memmingen
1
DSL2: Add 'output' documention for mtnucratio documentation DSL2
#1070 opened May 17, 2024 by scarlhoff
DSL2: Add MultiVCFAnalyzer DSL2 enhancement New feature or request
#1069 opened May 17, 2024 by aidaanva
@aidaanva
2
DSL2: Ensure modules config consistency: all modules have an ext.prefix and publishDir attribute, and follow conventions. DSL2
#1066 opened Apr 26, 2024 by TCLamnidis 3.0 Augsburg
Fix description of mt/n ratio in docs documentation DSL1 DSL2
#1055 opened Feb 28, 2024 by TCLamnidis 3.0 Augsburg
Throw warning when genotyping with pileupcaller on single-stranded libraries that were PE and not collapsed DSL2
#1054 opened Feb 23, 2024 by TCLamnidis
DSL2: Add HapCON? DSL2 enhancement New feature or request
#1015 opened Jul 21, 2023 by TCLamnidis
DSL2: Add to MultiQC support for coverage_across_reference.txt file DSL2 enhancement New feature or request needs upstream fix Needs a fix in the upstream tool project
#1001 opened Jun 23, 2023 by jfy133
DSL2: Print Nuclear Contamination JSON N/A value bug Something isn't working DSL2
#995 opened Jun 7, 2023 by TCLamnidis 3.0 Augsburg
2
DSL2: PMDTools for estimation vs manipulation of damage DSL2
#989 opened May 26, 2023 by TCLamnidis 3.1 Memmingen
DSL2: Add test profile that forces ALL the possible merging steps for FastQ and BAM inputs, to ensure no file name collisions happen. DSL2
#986 opened May 25, 2023 by TCLamnidis 3.0 Augsburg
@ilight1542
1
DSL2: Provide correct data for upload to sequencing archives (e.g. ENA) DSL2 enhancement New feature or request
#974 opened May 2, 2023 by TCLamnidis 3.1 Memmingen
DSL2L: Add support for specifying platform in input TSV DSL2 enhancement New feature or request
#970 opened Apr 21, 2023 by jfy133 3.1 Memmingen
Possiblity to extract non-host paired-end reads in separate FastQ files DSL2 enhancement New feature or request
#945 opened Feb 22, 2023 by alexhbnr 3.0 Augsburg
@jfy133
ProTip! Adding no:label will show everything without a label.