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23 Open 123 Closed
23 Open 123 Closed
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Issues list

AttributeError: module 'matplotlib.cm' has no attribute 'register_cmap' bug Something isn't working
#376 opened Jul 15, 2024 by kasiabla
New release please? enhancement New feature or request
#373 opened Jul 4, 2024 by siddharthab
1
Feature Request: call peaks for each replicate (diffbind), not only the merged data enhancement New feature or request
#367 opened Jun 28, 2024 by lindenb
3
deprecated container formats bug Something isn't working
#361 opened Apr 8, 2024 by LinearParadox
@JoseEspinosa
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
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
1
the sample field from the samplesheet is too lenient bug Something isn't working WIP Work in progress
#338 opened Oct 9, 2023 by maxulysse
@JoseEspinosa
MAKE_GENE_BED making 0kb .bed files
#334 opened Sep 6, 2023 by hcliedtke
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
Create md5 sums for data upload to public repositories enhancement New feature or request
#32 opened Apr 13, 2019 by drpatelh
Add single-cell analysis functionality enhancement New feature or request
#25 opened Apr 5, 2019 by drpatelh
Add IDR analysis enhancement New feature or request
#36 opened Feb 12, 2019 by drpatelh
2
ProTip! Exclude everything labeled bug with -label:bug.