Skip to content

Issues: nf-core/methylseq

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

35 Open 117 Closed
35 Open 117 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
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

Empty .bedGraph.gz and .bismark.cov.gz files
#483 opened Dec 9, 2024 by geethavenk
2
Error when running 2.7.0 and 2.7.1 bug Something isn't working
#482 opened Dec 5, 2024 by dcarrillox
6
Update the CI for pipeline-level bwameth GPU Tests enhancement New feature or request
#481 opened Dec 5, 2024 by sateeshperi 2.8.0
1
@sateeshperi
errors version???
#480 opened Dec 2, 2024 by torres-HI
7
create a test for samplesheet with technical replicates
#477 opened Dec 1, 2024 by sateeshperi 2.8.0
1
@sateeshperi
Update MetroMap for 2.8.0
#473 opened Nov 28, 2024 by sateeshperi 2.8.0
1
@ewels
Bismark soft clip --local_alignment True keeps L,value,value bug Something isn't working
#472 opened Nov 27, 2024 by ioannagare
Install fastq_align_dedup_bwameth subworkflow from nf-core subworkflows enhancement New feature or request
#467 opened Nov 27, 2024 by sateeshperi 2.8.0
1
@sateeshperi
Update multiqc output with bwameth metrics enhancement New feature or request
#463 opened Nov 22, 2024 by sateeshperi
@sateeshperi
Addition of --mergeContext for MethylDackel enhancement New feature or request
#460 opened Nov 21, 2024 by dcarrillox
4
Add minimap2 as aligner option for Bismark enhancement New feature or request
#455 opened Nov 12, 2024 by FelixKrueger
@sateeshperi
Failure parsing sample sheet, FASTA is null
#454 opened Nov 11, 2024 by johncthomas
3
Command error: ln: Sample_Name.fastq.gz: File exists
#425 opened Oct 10, 2024 by OliverH96
Is the cytosine report (.CpG_report.txt.gz) analyzed from deduplicated data?
#423 opened Oct 9, 2024 by gevro
Pipeline requires 72GB of RAM, even to test.
#408 opened Jul 26, 2024 by mpiersonsmela
3
Bwameth vs bismark enhancement New feature or request good first issue Good for newcomers
#405 opened Jun 23, 2024 by gevro
@sateeshperi
1
Adding --maxVariantFrac and --minOppositeDepth to MethylDackel (Bwameth option) enhancement New feature or request
#404 opened Jun 18, 2024 by LucaZanella15
AS-XS tag missing enhancement New feature or request
#397 opened May 1, 2024 by AndreiWCansor
Specify additional "genomes" of spike-in controls for downstream calculation of bisulfite conversion efficiency enhancement New feature or request
#394 opened Apr 1, 2024 by pdemko
@PanosProv
2
--rrbs and --emseq parameter and argument usage enhancement New feature or request
#389 opened Mar 20, 2024 by deep-buddingcoder
CG CHG and CHH with --comprehensive flag using bismark workflow enhancement New feature or request
#388 opened Mar 13, 2024 by MMJBerger
8
Add gemBS option enhancement New feature or request
#387 opened Mar 6, 2024 by seynard
Support for NuGEN Ovation RRBS enhancement New feature or request
#376 opened Jan 19, 2024 by jma1991
2
Add asTair enhancement New feature or request
#374 opened Jan 16, 2024 by bounlu
1
Add CX report support from bismark_methylation_extractor enhancement New feature or request good first issue Good for newcomers
#372 opened Jan 9, 2024 by Tintest
7
ProTip! Add no:assignee to see everything that’s not assigned.