nf-core differentialabundance issues

nf-core / differentialabundance

Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq

https://nf-co.re/differentialabundance

MIT License

46 stars 29 forks source link

issues

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Newest Most commented Recently updated Oldest Least commented Least recently updated

Bump shinyngs, fix contrasts passed to app creation

#280 pinin4fjords closed 3 days ago
2
How to use `--transcript_length_matrix` with nf-core/rnaseq `--aligner star_rsem` output?

#279 olgabot opened 1 week ago
1
Fix gprofiler2 genesets default object

#278 WackerO closed 2 weeks ago
1
For spike-in analysis, remove control features from outputs

#277 dshechter opened 3 weeks ago
0
Requests: Enhancements to DESeq2 csv outputs and PDF outputs

#276 dshechter opened 3 weeks ago
0
Provide a parameter to disable rmarkdown report creation in the differential abundance pipeline

#275 shreya-sharma20 opened 1 month ago
1
Fix pagination on samples table

#274 pinin4fjords closed 1 month ago
1
Template update for nf-core/tools v2.14.1

#273 WackerO closed 1 month ago
1
Show >10 contrasts in report

#272 pinin4fjords closed 1 month ago
2
Normalized/Raw data mishap on the report

#271 rekren closed 1 month ago
1
Missing colour and hover labels in interactive report volcano plot

#270 ajeffs opened 1 month ago
1
Important! Template update for nf-core/tools v2.14.1

#269 nf-core-bot closed 1 month ago
1
Important! Template update for nf-core/tools v2.14.0

#268 nf-core-bot closed 1 month ago
1
Minor fixes for release 1.5.0, update changelog

#267 WackerO closed 1 month ago
1
Fix logging by specifying assays to log

#266 pinin4fjords closed 1 month ago
2
GSEA- pngs and htmls in same place

#265 pinin4fjords closed 2 months ago
2
Change FILTER_DIFFTABLE to python because AWK does not correctly filter reliably

#264 WackerO closed 2 months ago
1
PosixFileAttributeView

#263 nick-youngblut opened 2 months ago
0
Auto-format sample names

#262 nick-youngblut opened 2 months ago
2
Failed to publish file => double forward slashes

#261 nick-youngblut opened 2 months ago
0
GSEA html reports have broken links to png and TSV files

#260 vmkalbskopf closed 2 months ago
1
Bump gtf2featureannotation to fix GTF handling error

#259 pinin4fjords closed 2 months ago
1
Error in TABULAR_TO_GSEA_CHIP

#258 acpicornell opened 2 months ago
1
Some fixes before the upcoming release

#257 WackerO closed 2 months ago
2
Release 1.5.0

#256 WackerO closed 1 month ago
2
Version bump in preparation of release 1.5.0

#255 WackerO closed 3 months ago
1
Some parameter changes, added qbic credits

#254 WackerO closed 3 months ago
2
Adding some explanations and removing spelling errors

#253 rezaiiimohammad closed 1 month ago
7
Process `NFCORE_DIFFERENTIALABUNDANCE:DIFFERENTIALABUNDANCE:GTF_TO_TABLE (gencode)` terminated with an error exit status (125)

#252 dgoswamia closed 3 months ago
4
release differentialabundance

#251 WackerO opened 3 months ago
0
Merging template updates for v2.13.1

#250 WackerO closed 3 months ago
2
Error with samplesheet.csv with two column headers that have prefix in common

#249 aghr opened 3 months ago
8
Please pin the version of the nf-validation plugin!

#248 mirpedrol closed 3 months ago
1
Continuous covariates

#247 BEFH opened 3 months ago
6
Important! Template update for nf-core/tools v2.13.1

#246 nf-core-bot closed 3 months ago
0
Name of blocking variable not correctly recognized

#245 aghr opened 4 months ago
7
Matrixfilter NA options

#244 WackerO closed 4 months ago
1
Dev version: On parameters website list parameter gene_sets_files in section GSEA

#243 aghr opened 4 months ago
1
URGENT: pin nf-validation version

#242 nvnieuwk closed 4 months ago
2
Merging template updates for v2.13

#241 WackerO closed 4 months ago
1
Publish gsea reports

#240 pinin4fjords closed 3 months ago
1
Remove parameter --gsea_run

#239 aghr closed 3 months ago
1
Mark --matrix as a required parameter in the parameter section on the diffabundance website

#238 aghr opened 4 months ago
1
DiffAbundance v1.4.0 does not work with most recent nextflow 23.10.1.5891

#237 aghr closed 4 months ago
3
Important! Template update for nf-core/tools v2.13

#236 nf-core-bot closed 4 months ago
0
Differential expression at transcript level

#235 fpsanz closed 2 weeks ago
6
Setting differential_subset_to_contrast_samples: true with output from nfcore rnaseq causes error

#234 aghr opened 4 months ago
2
Add note on scaling

#233 pinin4fjords closed 4 months ago
2
Mention missing dots in report volcano

#232 WackerO closed 4 months ago
3
GSEA update

#231 WackerO closed 4 months ago
1