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22 Open 33 Closed
22 Open 33 Closed
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Issues list

custom arguments to the cutadapt trimming enhancement Improvement for existing functionality
#231 opened Feb 26, 2025 by matbonfanti 3.0.0
@matbonfanti
0% Alignment Rate with Bowtie2 in CRISPRseq Workflow
#227 opened Feb 24, 2025 by vikramadhithyaThotam22
1
Allele frequencies for indels and edits enhancement Improvement for existing functionality feature-request Request for a new pipeline feature
#217 opened Nov 15, 2024 by dtatarak
Mageck MLE Failes with non trival design matrix. bug Something isn't working
#211 opened Oct 16, 2024 by andrewholding
3
Pass DRUGZ in conda enhancement Improvement for existing functionality
#189 opened Aug 1, 2024 by LaurenceKuhl
Sample not being detected as edited despite evidence of editing in the bam file bug Something isn't working
#188 opened Jul 25, 2024 by alan-tracey
1
MAGECK mle cnv correction doesn't work bug Something isn't working
#179 opened Jul 22, 2024 by LaurenceKuhl
4
MAGeCK is pulling conditions instead of unique sample names bug Something isn't working
#172 opened Jul 15, 2024 by jeremymsimon
1
Suggested addition: a PCA illustrating sample/condition/replicates enhancement Improvement for existing functionality
#166 opened Jul 5, 2024 by jeremymsimon
ZeroDivisionError at alignment_summary.py stage due to low read number in input: mapped_reads_percentage = mapped_reads_count * 100 / total_reads_count bug Something isn't working
#164 opened Jul 4, 2024 by alan-tracey
N characters introduced into *indels.csv bug Something isn't working
#162 opened Jul 4, 2024 by alan-tracey
7
Pass BAGEL2 in conda enhancement Improvement for existing functionality
#155 opened Jun 14, 2024 by LaurenceKuhl
@LaurenceKuhl
Add separate R scripts for local modules enhancement Improvement for existing functionality
#154 opened Jun 14, 2024 by LaurenceKuhl
@LaurenceKuhl
Integrate Chronos for screen data enhancement Improvement for existing functionality
#112 opened Feb 2, 2024 by j-andrews7
2
Pass file to cutadapt enhancement Improvement for existing functionality
#107 opened Jan 17, 2024 by morriso1
2
Update nf-core/modules/mageck/count enhancement Improvement for existing functionality
#88 opened Nov 13, 2023 by LaurenceKuhl
UMI steps to subworkflows enhancement Improvement for existing functionality good-first-issue
#46 opened Jun 27, 2023 by mirpedrol
Add nf-test enhancement Improvement for existing functionality
#28 opened May 26, 2023 by mirpedrol 3.0.0
Alignment subworkflows enhancement Improvement for existing functionality good-first-issue
#20 opened Mar 10, 2023 by mirpedrol
Reduce cigar parser R script enhancement Improvement for existing functionality
#18 opened Mar 10, 2023 by mirpedrol
Add mock samples enhancement Improvement for existing functionality
#17 opened Mar 10, 2023 by mirpedrol
Add spikes functionality enhancement Improvement for existing functionality
#15 opened Mar 10, 2023 by mirpedrol
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