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47 Open 580 Closed
47 Open 580 Closed
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Issues list

Accept uncompressed files, for instance fastq enhancement
#1343 opened Jul 17, 2024 by TheWizier
NFCORE_RNASEQ takes values from global scope
#1339 opened Jul 9, 2024 by adamrtalbot
Stubs all the way down enhancement
#1338 opened Jul 9, 2024 by maxulysse
Add support to use the pipeline with NGS generated using zymo research kit enhancement
#1337 opened Jul 6, 2024 by Ahmedalaraby20
3
Unable to go from FASTQ to Salmon Quantification bug Something isn't working
#1333 opened Jul 2, 2024 by SuhasSrinivasan
Custom content plots missing in MultiQC ouptut bug Something isn't working
#1332 opened Jun 28, 2024 by pinin4fjords 3.15.0
Add tximport for RSEM outputs enhancement
#1320 opened Jun 18, 2024 by olgabot
pipeline no longer compatible with newest STAR 2.7.11b bug Something isn't working
#1316 opened Jun 12, 2024 by gvogler
Error running process NFCORE_RNASEQ:RNASEQ:BAM_RSEQC:RSEQC_JUNCTIONANNOTATION bug Something isn't working
#1315 opened Jun 12, 2024 by charlesdavid
External Argument Documentation enhancement
#1313 opened Jun 5, 2024 by charlesdavid
3
GUNZIP does not work for relative paths specified with --fasta and --gtf bug Something isn't working Ready for review
#1311 opened May 31, 2024 by fbnrst
1
Please add gene names to merged rsem output files enhancement
#1300 opened May 14, 2024 by ianyfchang
Replace nf-validation with nf-schema enhancement
#1290 opened Apr 30, 2024 by adamrtalbot 3.16.0
1
Validate FASTQs prior to running pipeline enhancement
#1281 opened Apr 10, 2024 by adamrtalbot 3.16.0
Improve/add UMI deduplication metrics awaiting-response-community enhancement
#1277 opened Apr 2, 2024 by ppericard 3.16.0
@MatthiasZepper
4
Add additional FastQC step after optional BBSplit and/or SortMeRNA awaiting-response-developers enhancement
#1276 opened Mar 28, 2024 by ppericard 3.16.0
Two Bigwig files per sample are generated representing each strand awaiting-response-community enhancement
#1275 opened Mar 26, 2024 by drimran87 3.16.0
3
Qualimap assigns more reads to exonic regions than total reads in the sample awaiting-response-developers documentation
#1273 opened Mar 21, 2024 by ctuni 3.16.0
Salmon --keepDuplicates by default enhancement
#1259 opened Mar 12, 2024 by adamrtalbot 3.16.0
2
BBPSPLIT fails cryptically with user errors bug Something isn't working
#1130 opened Nov 22, 2023 by pinin4fjords
4
Explicit subsampling step in rnaseq pipeline enhancement
#1097 opened Oct 17, 2023 by ewallace 3.16.0
1
Turn off quantification flag enhancement
#1089 opened Oct 10, 2023 by adamrtalbot 3.16.0
Add umicollapse and benchmark it against umitools dedup enhancement
#1087 opened Oct 5, 2023 by MatthiasZepper
@MatthiasZepper @ctuni
9
Documentation update: GTF/GFF and biotype annotation enhancement first-timers-only Good for newcomers
#1086 opened Oct 5, 2023 by MatthiasZepper
6
Facilitate running the rnaseq pipeline on prokaryotic samples enhancement
#1085 opened Oct 5, 2023 by MatthiasZepper
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