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Issues list

MultiQC report is missing fastQC results on the dev branch bug Something isn't working
#1303 opened May 21, 2024 by davidecarlson 3.15.0
@MatthiasZepper
5
Please add gene names to merged rsem output files enhancement
#1300 opened May 14, 2024 by ianyfchang
Pipeline gets stuck with weird nextflow.log bug Something isn't working
#1299 opened May 13, 2024 by me-orlov
3
NFCORE_RNASEQ:RNASEQ:ALIGN_STAR:STAR_ALIGN_IGENOMES Segmentation fault question Further information is requested
#1294 opened May 7, 2024 by fjosefdz 3.15.0
7
NFCORE_RNASEQ:RNASEQ:ALIGN_STAR:STAR_ALIGN: failed with exit status 140 and 102 question Further information is requested
#1292 opened May 2, 2024 by DollyCM 3.15.0
3
Replace nf-validation with nf-schema enhancement
#1290 opened Apr 30, 2024 by adamrtalbot 3.15.0
1
Pipe line Error with HiSAT2 Aligner bug Something isn't working
#1288 opened Apr 29, 2024 by merang2050 3.15.0
2
Validate FASTQs prior to running pipeline enhancement
#1281 opened Apr 10, 2024 by adamrtalbot 3.15.0
Improve/add UMI deduplication metrics enhancement
#1277 opened Apr 2, 2024 by ppericard 3.15.0
3
Add additional FastQC step after optional BBSplit and/or SortMeRNA enhancement
#1276 opened Mar 28, 2024 by ppericard 3.15.0
Two Bigwig files per sample are generated representing each strand enhancement
#1275 opened Mar 26, 2024 by drimran87 3.15.0
2
Qualimap assigns more reads to exonic regions than total reads in the sample documentation
#1273 opened Mar 21, 2024 by ctuni 3.15.0
NFCORE_RNASEQ:RNASEQ:FASTQ_ALIGN_HISAT2:HISAT2_ALIGN (pituitary_stage3-1) terminated with an error exit status (1) question Further information is requested
#1270 opened Mar 19, 2024 by hyBio 3.15.0
4
Salmon --keepDuplicates by default enhancement
#1259 opened Mar 12, 2024 by adamrtalbot 3.15.0
2
extra_salmon_quant_args quote issue bug Something isn't working
#1257 opened Mar 11, 2024 by kdivilov 3.15.0
1
invalid literal for int() with base 10: '0.79;logic_name=cpg' question Further information is requested
#1215 opened Feb 16, 2024 by ZabalaAitor 3.15.0
Having issues similar to #1003 "FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX is launched multiple times and fails" question Further information is requested
#1203 opened Jan 30, 2024 by Jgarlan1 3.15.0
2
FASTP trimming Smart3-seq data removes all reads (UMI discard read2) bug Something isn't working
#1200 opened Jan 23, 2024 by mschubert 3.15.0
STAR biocontainer is incorrect (not 2.7.10a version) question Further information is requested
#1198 opened Jan 22, 2024 by mauro-saporita 3.15.0
second and third columns meaning in tx2gene.tsv from star_salmon question Further information is requested
#1193 opened Jan 16, 2024 by jdanaK
GFF file regex enhancement
#1190 opened Jan 14, 2024 by roldanjg 3.15.0
@roldanjg
1
Salmon strand inference is often wrong enhancement
#1185 opened Jan 9, 2024 by zeehio 3.15.0
2
BBPSPLIT fails cryptically with user errors bug Something isn't working
#1130 opened Nov 22, 2023 by pinin4fjords 3.15.0
Running this pipeline on AWS Batch question Further information is requested
#1110 opened Nov 10, 2023 by lwtan90 3.15.0
6
Error Message: One or more container images specified are invalid question Further information is requested
#1099 opened Oct 20, 2023 by RamiyapriyaS 3.15.0
1
ProTip! Exclude everything labeled bug with -label:bug.