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42 Open 88 Closed
42 Open 88 Closed
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Issues list

TMPDIR not set for bismark bug Something isn't working
#413 opened Sep 4, 2024 by peterch405
Pipeline requires 72GB of RAM, even to test. bug Something isn't working
#408 opened Jul 26, 2024 by mpiersonsmela
2
samplesheet handling: different path + same filename gives an error bug Something isn't working
#407 opened Jun 28, 2024 by AdrijaK
Bwameth vs bismark enhancement New feature or request good first issue Good for newcomers
#405 opened Jun 23, 2024 by gevro 2.7.0
@sateeshperi
1
Adding --maxVariantFrac and --minOppositeDepth to MethylDackel (Bwameth option) enhancement New feature or request
#404 opened Jun 18, 2024 by LucaZanella15
Write tests for samplesheet sample merging/grouping
#402 opened May 21, 2024 by edmundmiller 2.7.0
@FelixKrueger @sateeshperi
AS-XS tag missing enhancement New feature or request
#397 opened May 1, 2024 by AndreiWCansor
bwameth pipeline skipping all bwameth steps when --fasta, --fasta_index, and --bwa_meth_index are provided. bug Something isn't working
#396 opened Apr 5, 2024 by drothen15 2.7.0
4
Schematic for the methylseq pipeline enhancement New feature or request
#395 opened Apr 2, 2024 by Shaun-Regenbaum 2.7.0
@Shaun-Regenbaum
5
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
1
Latest template merge completely broke dev branch (on AWS + Fusion) bug Something isn't working
#392 opened Mar 27, 2024 by FelixKrueger 2.7.0
1
4
typo in samplesheet in README.md?
#391 opened Mar 25, 2024 by fbnrst 2.7.0
@sateeshperi
--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
Create metro map enhancement New feature or request
#383 opened Feb 27, 2024 by matrulda
1
samplesheet input is not detecting entire values in sample column bug Something isn't working
#378 opened Feb 9, 2024 by wvictor14
6
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
--skip_qualimap parameter to disable qualimap enhancement New feature or request
#367 opened Jan 3, 2024 by adamrtalbot
Missing type field in nextflow_schema.json file bug Something isn't working
#361 opened Dec 1, 2023 by scoughlan2 2.7.0
Error when providing a bwameth index (MethylSeq v2.4.0 and v2.5.0) bug Something isn't working
#353 opened Oct 25, 2023 by bioinfoMMS 2.7.0
2
bwameth index creation fails bug Something isn't working
#352 opened Oct 23, 2023 by FutureFellwalker 2.7.0
8
Pipeline unable to recognise samples processed across multiple lanes bug Something isn't working
#351 opened Oct 22, 2023 by jma1991
2
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