snakemake-workflows rna-seq-star-deseq2 issues

snakemake-workflows / rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2

MIT License

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issues

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Update rseqc.yaml

#91 iamh2o opened 3 weeks ago
0
Update pandas.yaml

#90 iamh2o opened 3 weeks ago
0
Update gffutils.yaml

#89 iamh2o opened 3 weeks ago
0
Update deseq2.yaml

#88 iamh2o opened 3 weeks ago
1
Update biomart.yaml

#87 iamh2o opened 3 weeks ago
2
Pathway Enrichment Analysis

#86 bouchetj closed 2 months ago
1
Update samples.tsv

#85 vaalers closed 3 months ago
0
MissingInputException (diffexp.smk, line 1)

#84 vaalers closed 3 months ago
1
`Align` step fails with `could not open input file /geneInfo.tab`

#83 benostendorf opened 5 months ago
5
chore(master): release 2.1.2

#82 github-actions[bot] closed 5 months ago
1
fix: use derived input for star_index

#81 bilalshaikh42 closed 5 months ago
1
chore(master): release 2.1.1

#80 github-actions[bot] closed 7 months ago
1
fix: release-please branch to `master` and set permissions

#79 dlaehnemann closed 7 months ago
0
perf: update all wrapper to latest v3.5.3

#78 dlaehnemann closed 7 months ago
0
docs: make example `config/config.yaml` consistent with `config/samples.tsv`

#77 dlaehnemann closed 7 months ago
0
fix: remove unused ftp RemoteProvider

#76 dlaehnemann closed 7 months ago
1
chore: dummy commit to trigger ci testing

#75 dlaehnemann closed 7 months ago
1
Issue running site-packages

#74 bbidonb closed 7 months ago
3
base_level and level_of_interest in example config.yaml

#73 keksundso closed 7 months ago
1
Failed to run with cutadapt

#72 cchapus closed 7 months ago
1
specify snakelike version during installation?

#71 ceesu closed 9 months ago
6
fix: Fixing workflow for single-end sequencing

#70 Wolfffff closed 11 months ago
9
fix: update gffults & qc

#69 hmkim closed 1 year ago
3
AttributeError: module 'sqlite3' has no attribute 'OptimizedUnicode'

#68 hmkim closed 1 year ago
2
correct installation of workflow with R

#67 ceesu closed 1 year ago
2
feat!: generalize away condition

#66 dlaehnemann closed 1 year ago
2
Pipeline failing with cutadapt

#65 aryazand closed 1 year ago
4
feat: add release-please and use conventional commits

#64 dlaehnemann closed 1 year ago
0
fix: make specification of SRA samples in samples.tsv work (common.smk)

#63 dlaehnemann closed 1 year ago
0
fix: make `get_deseq2_threads()` proper function call in diffexp.smk

#62 dlaehnemann closed 1 year ago
0
fixed trimmed fastq filename in get_fq()

#61 aryazand closed 1 year ago
2
fix: stable column ordering in count-matrix.py

#60 cbp44 closed 1 year ago
0
Updated all wrappers to most current version

#59 isaacvock closed 1 year ago
6
Multiqc error: module 'collections' has no attribute 'Mapping'

#58 isaacvock closed 1 year ago
3
improve environment specifications

#57 mfansler closed 1 year ago
2
Data availability?

#56 vsoch closed 1 year ago
2
Costum genome as reference

#55 seb-mueller closed 1 year ago
1
Error in code

#54 bhimbbiswa closed 1 year ago
1
Condition in samples.tsv is too specific

#53 jonathandmoore closed 1 year ago
7
Problem when defining SRA accession instead of fq1/fq2 hardfiles

#52 plycrsk closed 1 year ago
0
Pipeline is delisted in Snakemake workflow catalog

#51 aerval closed 2 years ago
1
read_distribution.py

#50 Moonerss closed 1 year ago
1
Fix for GitHub Actions, and fix to avoid potential column reordering in count-matrix.py

#49 cbp44 closed 1 year ago
3
Fix for GitHub Actions and fix for column sorting issue in count-matrix.py

#48 cbp44 closed 2 years ago
0
Bugfix – Fix broken GitHub Action jobs

#47 cbp44 closed 2 years ago
1
Bugfix – Avoid potential column reordering in count-matrix.py

#46 cbp44 closed 2 years ago
1
SyntaxError in line 14 of Snakefile

#45 Blosberg closed 1 year ago
1
Fix ValueError

#44 alienzj closed 1 year ago
4
config.yaml defaults

#43 neavemj closed 1 year ago
1
trim.smk file name

#42 neavemj closed 1 year ago
4