Skip to content

Issues: nf-core/rnaseq

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

54 Open 561 Closed
54 Open 561 Closed
Author
Filter by author
Label
Filter by label
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Milestones
Filter by milestone
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Dog seems unsupported, first issue is igenomes reference fasta dir vs RNAseq regex awaiting-response-community bug Something isn't working
#1305 opened May 29, 2024 by ChristopherSNelson
3
MultiQC report is missing fastQC results on the dev branch awaiting-response-developers bug Something isn't working needs-testing
#1303 opened May 21, 2024 by davidecarlson 3.15.0
@MatthiasZepper
9
Please add gene names to merged rsem output files enhancement
#1300 opened May 14, 2024 by ianyfchang
NFCORE_RNASEQ:RNASEQ:ALIGN_STAR:STAR_ALIGN_IGENOMES Segmentation fault awaiting-response-developers question Further information is requested
#1294 opened May 7, 2024 by fjosefdz 3.15.0
7
Replace nf-validation with nf-schema enhancement
#1290 opened Apr 30, 2024 by adamrtalbot 3.16.0
1
Pipe line Error with HiSAT2 Aligner awaiting-response-community 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 3.16.0
Improve/add UMI deduplication metrics awaiting-response-developers enhancement
#1277 opened Apr 2, 2024 by ppericard 3.16.0
3
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
2
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
NFCORE_RNASEQ:RNASEQ:FASTQ_ALIGN_HISAT2:HISAT2_ALIGN (pituitary_stage3-1) terminated with an error exit status (1) awaiting-response-developers 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 3.16.0
2
extra_salmon_quant_args quote issue awaiting-response-developers bug Something isn't working needs-testing
#1257 opened Mar 11, 2024 by kdivilov 3.15.0
1
invalid literal for int() with base 10: '0.79;logic_name=cpg' awaiting-response-developers 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" awaiting-response-community 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) awaiting-response-developers bug Something isn't working needs-testing
#1200 opened Jan 23, 2024 by mschubert 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 awaiting-response-community enhancement
#1190 opened Jan 14, 2024 by roldanjg 3.15.0
@roldanjg
1
Salmon strand inference is often wrong awaiting-response-developers enhancement
#1185 opened Jan 9, 2024 by zeehio 3.15.0
1
3
BBPSPLIT fails cryptically with user errors bug Something isn't working
#1130 opened Nov 22, 2023 by pinin4fjords
4
Running this pipeline on AWS Batch question Further information is requested
#1110 opened Nov 10, 2023 by lwtan90 3.15.0
7
Error Message: One or more container images specified are invalid awaiting-response-community question Further information is requested
#1099 opened Oct 20, 2023 by RamiyapriyaS 3.15.0
2
Explicit subsampling step in rnaseq pipeline enhancement
#1097 opened Oct 17, 2023 by ewallace 3.16.0
1
Subsampling with fastp - document and test awaiting-response-developers enhancement needs-testing
#1096 opened Oct 17, 2023 by ewallace 3.15.0
2
ProTip! Type g p on any issue or pull request to go back to the pull request listing page.