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43 Open 391 Closed
43 Open 391 Closed
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Issues list

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
DSL2: Ensure that all sharded fastQs make it into mapping. bug Something isn't working DSL2
#1089 opened Sep 27, 2024 by TCLamnidis 3.0 Augsburg
3
DSL2: Add bamRefine as a damage manipulation alternative? enhancement New feature or request
#1087 opened Sep 19, 2024 by TCLamnidis
1
vcf2genome error bug Something isn't working
#1086 opened Sep 9, 2024 by dbajpp0
3 tasks
1
DSL2 Metagenomics - Update the test-datasets and input-files for test profiles DSL2 small_fix
#1085 opened Sep 6, 2024 by merszym
@merszym @ilight1542
DSL2: Metagenomics: Allow Skip-pairmerging before running metagenomics DSL2 enhancement New feature or request
#1084 opened Sep 6, 2024 by merszym
@merszym @ilight1542
1
DSL2: Genotyping on multiple snp sets in one run? DSL2 enhancement New feature or request
#1077 opened Jun 21, 2024 by TCLamnidis 3.0 Augsburg
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
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
CRAM output DSL2 enhancement New feature or request
#1059 opened Mar 22, 2024 by TCLamnidis
1
Fix description of mt/n ratio in docs documentation 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: Allow changing parameters for BWA mem. DSL2 enhancement New feature or request
#1026 opened Oct 19, 2023 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 enhancement New feature or request
#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: Ensure to document input run BAMs will _not_ be merged with FASTQ libraries even if same name DSL2 enhancement New feature or request
#994 opened Jun 2, 2023 by jfy133 3.0 Augsburg
2
DSL2: PMDTools for estimation vs manipulation of damage DSL2
#989 opened May 26, 2023 by TCLamnidis
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
DSL2: Add lane attribute to BAM inputs bug Something isn't working DSL2
#985 opened May 25, 2023 by TCLamnidis
1 of 3 tasks
3.0 Augsburg
@jfy133
DSL2: ensure versions.yml aren't published DSL2 enhancement New feature or request
#979 opened May 11, 2023 by scarlhoff 3.0 Augsburg
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 3.0 Augsburg
DSL2L: Add support for specifying platform in input TSV DSL2 enhancement New feature or request
#970 opened Apr 21, 2023 by jfy133 3.0 Augsburg
DSL2: Make publication of large intermediate files opt-in DSL2 enhancement New feature or request
#968 opened Mar 31, 2023 by scarlhoff
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