hoelzer-lab rnaflow issues

hoelzer-lab / rnaflow

A simple RNA-Seq differential gene expression pipeline using Nextflow

GNU General Public License v3.0

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issues

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hista2 error using singularity profile

#238 chrissikath opened 1 week ago
7
Fastq preprocessing causing hisat2 error

#237 DAWells closed 4 months ago
5
About the batch effect

#236 zhangwenda0518 closed 6 months ago
3
Dont use characters other than letters, numbers, '_' and '.' in the design

#235 hoelzer opened 6 months ago
0
Issue with comparisons.csv file

#234 mglgc closed 6 months ago
4
add pbspro executor

#233 hoelzer opened 7 months ago
0
singularity problem

#232 mictadlo opened 7 months ago
13
Add Sus scrofa

#231 hoelzer closed 7 months ago
0
Adding Sus scrofa to Piano and Webgestalt

#230 hoelzer opened 7 months ago
1
Piano and WebGestalt

#229 m-jahani closed 6 months ago
4
Deseq2 error

#228 AnneBoshove closed 7 months ago
18
ggkegg package

#227 hoelzer opened 9 months ago
0
WEBGESTALT using KEGG 2019 Database

#226 marlt opened 1 year ago
0
error in DESeq2 step

#225 m-jahani opened 1 year ago
3
Fix webgestalt missing organism

#224 fischer-hub closed 1 year ago
9
Webgestalt: Organism is missing Error

#223 hoelzer opened 1 year ago
2
Webgestalt error on restricted HPC

#222 hoelzer closed 1 year ago
1
DESeq2 error handling, increase RAM on HPC

#221 hoelzer closed 1 year ago
0
correct storage path of .tar.gz sortmerna files

#220 hoelzer closed 1 year ago
0
ERROR ~ Error executing process > 'download_sortmerna:sortmernaGet'

#219 apkbala107 opened 1 year ago
1
Improved visuals

#218 hoelzer opened 1 year ago
0
Help running test profile

#217 telatin opened 1 year ago
4
When i execute the pipeline i am getting -> ERROR ~ Error executing process > 'download_sortmerna:sortmernaGet'

#216 apkbala107 closed 1 year ago
16
Getting error Trying to give AWS S3 Bucket data as the input for this pipeline.

#215 apkbala107 opened 1 year ago
3
~Missing hisat2 index file reports an error~ Improve UX for genome concatenation

#214 weir12 opened 1 year ago
2
Padj Value for Volcano Plot

#213 tensulin opened 1 year ago
1
ResolvePackageNotFound: isa-l

#212 th-of closed 1 year ago
6
Rebuild deseq image

#211 tensulin opened 1 year ago
5
Fix refactor_reportingtools_table.rb crash whenrun with non-ENS feature IDs and feature_type not 'gene'

#210 fischer-hub closed 1 year ago
3
Fix pca plots and ENS ID lookup for non ENS IDs

#209 fischer-hub closed 1 year ago
0
Fix deseq2 warnings ( use 'rowNames' instead of 'row.names' )

#208 fischer-hub closed 1 year ago
0
explicitly enable conda in conda profile

#207 fischer-hub closed 1 year ago
4
Pipeline not starting on HPC due to nf-tower plugin

#206 fischer-hub closed 1 year ago
5
Provide alternative mapping tools

#205 hoelzer opened 1 year ago
0
ReportingTools does not finish the HTML plot

#204 hoelzer closed 1 year ago
0
PCAs have only one data point

#203 hoelzer closed 1 year ago
2
Warning use rowNames instead of row.names

#202 hoelzer closed 1 year ago
0
Running test profile w/ conda or mamba fails

#201 hoelzer closed 1 year ago
1
update DGE result documentation

#200 fischer-hub closed 2 years ago
1
directionality of the comparison from Deseq2 output

#199 shalinisingh65 opened 2 years ago
5
possible deseq container error

#198 danchubb closed 2 years ago
8
featurecounts strandedness issue

#197 danchubb closed 2 years ago
9
make webgestalt output optional

#196 hoelzer closed 2 years ago
0
fix typo

#195 fischer-hub closed 2 years ago
0
push local changes that prevent checkout

#194 hoelzer closed 2 years ago
1
fix channel order in expression_reference_based sub-wf, closes #191

#193 fischer-hub closed 2 years ago
0
A question that no 07-DifferentialExpression generated ！

#192 zhangwenda0518 closed 1 year ago
16
Error: expression_reference_based:webgestalt (MAQCA_vs_MAQCB)

#191 hoelzer closed 2 years ago
1
Process `expression_reference_based:tpm_filter` input file name collision

#190 AGunnell77 closed 2 years ago
18
fix bad character " ' " in gene names crashing deseq2.R , closes #177

#189 fischer-hub closed 2 years ago
0