nf-core/circrna

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circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data

Stars: 61
Forks: 33
Open beginner issues: 0
Indexed issues: 18

Dominant language: Nextflow
License: MIT
Last GitHub push: Jul 24, 2026
Latest indexed: Sep 19, 2026
Contributing guide: Contributing guide
Code of conduct: Code of conduct
Beginner labels: No beginner labels indexed
PR merge metrics: No merged PRs in 30d

Beginner friendly Everything

Open All

18 open issues indexed

Suggestion: release a stable version while continuing development on dev Open

enhancement

Difficulty 5/5 Over a week Newbie friendliness 35/100

nf-core/circrna#225 · Opened Aug 26, 2026
DESeq2 analysis from abundance.tsv files Open

enhancement

Difficulty 1/5 Under an hour Newbie friendliness 25/100

nf-core/circrna#224 · Opened Aug 14, 2026
Transcriptome output not seen Open

bug

Difficulty 3/5 1-2 days Newbie friendliness 35/100

nf-core/circrna#220 · Opened Mar 31, 2026
MERGE_EXPERIMENTS fails with "undefined columns selected" when subsetting TPM matrix - dev branch Open

bug

Difficulty 3/5 1-2 days Newbie friendliness 45/100

nf-core/circrna#219 · Opened Mar 31, 2026
'NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:COMPUTE_CORRELATIONS (batch_1)' Open

bug

Difficulty 3/5 1-2 days Newbie friendliness 48/100

nf-core/circrna#218 · Opened Mar 23, 2026
circexplorer2 error Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

nf-core/circrna#215 · 1 comment · Opened Oct 17, 2025
Assembly sequence analysis Open

bug

Difficulty 3/5 1-2 days Newbie friendliness 15/100

nf-core/circrna#213 · Opened Sep 30, 2025
handling of DCC output for single-ended inputs Open

bug

Difficulty 3/5 1-2 days Newbie friendliness 35/100

nf-core/circrna#210 · Opened Aug 14, 2025
Implement CycleR Open

enhancement

Difficulty 5/5 Over a week Newbie friendliness 15/100

nf-core/circrna#200 · Opened May 1, 2025
Implement CircExplorer3/CLEAR Open

enhancement

Difficulty 5/5 Over a week Newbie friendliness 20/100

nf-core/circrna#198 · Opened Apr 23, 2025
Implement CIRI3 Open

enhancement

Difficulty 5/5 Over a week Newbie friendliness 20/100

nf-core/circrna#197 · Opened Apr 23, 2025
Add limit for maximum circRNA length Open

enhancement

Difficulty 5/5 Over a week Newbie friendliness 25/100

nf-core/circrna#189 · Opened Apr 22, 2025
Add circMiner circRNA detection Open

enhancement

Difficulty 4/5 3-5 days Newbie friendliness 25/100

nf-core/circrna#169 · 1 reaction · Opened Aug 19, 2024
Add `psirc quant` output to MulitQC via `kallisto` module Open

enhancement first-timers-only

Difficulty 4/5 3-5 days Newbie friendliness 25/100

nf-core/circrna#146 · Opened Jun 10, 2024
Implement polyA-Benchmarking Open

feature-request

nf-core/circrna#143 · 1 assignee · Opened Jun 9, 2024
Implement miRNA sponging analysis Open

feature-request

nf-core/circrna#137 · 1 assignee · Opened Jun 9, 2024
Add support for RNAse-R effect correction Open

feature-request first-timers-only

Difficulty 4/5 3-5 days Newbie friendliness 35/100

nf-core/circrna#105 · Opened Mar 18, 2024
Implement coding potential analysis Open

feature-request first-timers-only

nf-core/circrna#93 · 1 assignee · Opened Jan 30, 2024

nf-core/circrna

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