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28 Open 114 Closed
28 Open 114 Closed
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Issues list

Unable to join Slack channel bug Something isn't working
#364 opened May 8, 2024 by JessicaHacheney
deprecated container formats bug Something isn't working
#361 opened Apr 8, 2024 by LinearParadox
Improve website on parameters section Alignment Options for argument --save_unaligned enhancement New feature or request
#359 opened Mar 20, 2024 by aghr
Get template v2.13.1 (get rid of lib) enhancement New feature or request
#356 opened Mar 20, 2024 by JoseEspinosa
1
@JoseEspinosa
Please pin the version of the nf-validation plugin! enhancement New feature or request
#354 opened Mar 8, 2024 by mirpedrol
Remove lib library enhancement New feature or request WIP Work in progress
#353 opened Mar 5, 2024 by JoseEspinosa
@JoseEspinosa
question for constructing samplesheet
#349 opened Feb 15, 2024 by pseudacriscrucifer
1
suggestion: use samtools view --uncompressed before piping in bamtools_filter enhancement New feature or request
#346 opened Jan 26, 2024 by lindenb
Feature Request: summary table for each sample enhancement New feature or request
#345 opened Jan 26, 2024 by lindenb
Increase memory allocation for BEDTOOLS_GENOMECOV enhancement New feature or request
#344 opened Dec 22, 2023 by SPPearce
1
bam_csi_index parameter for ATACSeq enhancement New feature or request
#343 opened Dec 20, 2023 by BianyunY-ACRD
implement the bam_csi_index parameter in atacseq pipeline enhancement New feature or request
#340 opened Oct 27, 2023 by BianyunY-ACRD
Process terminated for an unknown reason (SLURM) bug Something isn't working
#339 opened Oct 16, 2023 by hdbeukel
the sample field from the samplesheet is too lenient bug Something isn't working
#338 opened Oct 9, 2023 by maxulysse
MAKE_GENE_BED making 0kb .bed files
#334 opened Sep 6, 2023 by hcliedtke
Error executing process > 'NFCORE_ATACSEQ:ATACSEQ:CUSTOM_DUMPSOFTWAREVERSIONS (1)' bug Something isn't working
#330 opened Aug 18, 2023 by anijudy
1
CSI bam index not working bug Something isn't working
#327 opened Aug 10, 2023 by heathfuqua
1
1
Add GRCm39 option to config enhancement New feature or request
#273 opened May 2, 2023 by laurenhsu1
1
Biotype analysis using featureCounts enhancement New feature or request
#188 opened Aug 11, 2022 by chuan-wang
Peak calling parameters might not be ideal enhancement New feature or request
#169 opened Feb 17, 2022 by ktrns
3
Genome annotation (gene names) missing in IGV session file enhancement New feature or request
#168 opened Feb 17, 2022 by ktrns
1
Does nf-core/atacseq apply an offset to each ATAC-seq fragment? question Further information is requested
#164 opened Sep 22, 2021 by rcorces 2.0
3
Addition of peak-calling with Genrich enhancement New feature or request
#108 opened Jun 13, 2020 by chlazaris 2.2
@i-pletenev @samuelruizperez
Adding the feature of shifting and splitting the reads enhancement New feature or request
#91 opened Mar 4, 2020 by husaynahmed
4
Implement Hidden-Markow-Models implemented in ChromstaR for genome-wide characterization of open chromatin landscape enhancement New feature or request
#89 opened Feb 28, 2020 by Temperche
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