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18 Open 48 Closed
18 Open 48 Closed
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Issues list

java VM optoins change
#163 opened Dec 12, 2024 by IanSudbery
1
semi colons in preprocess commands
#162 opened Jul 15, 2024 by IanSudbery
1
Regex in buildExonTranscript (pipeline_genesets)
#160 opened Mar 19, 2024 by jaime11
buildJunctions in mapping pipeline produces invalid file
#157 opened Mar 23, 2022 by IanSudbery
1
Alternate pipeline paths and checksums
#149 opened Sep 20, 2021 by IanSudbery
2
rnaseqqc - Error setting xlim in plotStrandednessSalmon
#146 opened Sep 2, 2021 by IanSudbery
9
cgat-flow-pipelines.yml causes installation of cgat-apps 0.6.0
#143 opened Aug 26, 2021 by IanSudbery
12
pipeline_genesets assumes that a genome has a miRBase entry
#136 opened Feb 16, 2021 by IanSudbery
1
Installation breaks cgat-apps bamtools
#133 opened Nov 20, 2020 by IanSudbery
4
MACS2 is now compatible with python3
#132 opened Nov 10, 2020 by IanSudbery
1
bamstats counts unaligned reads as intergenic.
#130 opened Sep 15, 2020 by IanSudbery
1
install-level script conflicts
#127 opened Jan 20, 2020 by Acribbs
1
Updated samtools doesn't work with hisat2 in mapping pipeline
#124 opened Dec 19, 2019 by microbialman
1
Filter HOT regions enhancement New feature or request
#102 opened Jun 28, 2019 by Acribbs
Mapping rate no longer reported by any pipeline
#85 opened Jan 3, 2019 by IanSudbery
6
Memory in peakcalling checkBams
#78 opened Nov 5, 2018 by IanSudbery
8
Regex for paired sequencing in pipeline_readqc
#75 opened Oct 22, 2018 by IanSudbery
Duplication of code between bamstats.py and mappingqc.py
#60 opened Sep 21, 2018 by jscaber
2
ProTip! Exclude everything labeled bug with -label:bug.