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snakemake-workflows
/
rna-seq-star-deseq2
RNA-seq workflow using STAR and DESeq2
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Stargazers:
311
Watchers:
11
Issues:
37
Forks:
190
snakemake-workflows/rna-seq-star-deseq2 Issues
specify snakelike version during installation?
Closed
4 months ago
Comments count
6
Issue running site-packages
Closed
2 months ago
Comments count
3
base_level and level_of_interest in example config.yaml
Closed
2 months ago
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1
Failed to run with cutadapt
Closed
2 months ago
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1
AttributeError: module 'sqlite3' has no attribute 'OptimizedUnicode'
Closed
7 months ago
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2
correct installation of workflow with R
Closed
8 months ago
Comments count
2
Condition in samples.tsv is too specific
Closed
a year ago
Comments count
7
Pipeline failing with cutadapt
Closed
a year ago
Comments count
4
Problem when defining SRA accession instead of fq1/fq2 hardfiles
Closed
a year ago
annotation.bed file size zero
Closed
a year ago
Comments count
4
rule rseqc_gtf2bed failing with test dataset
Closed
a year ago
Comments count
2
fq1 is not None (rule align)
Closed
a year ago
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8
DESeq2 Plots Incorrectly Displayed
Closed
a year ago
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7
trim.smk file name
Closed
a year ago
Comments count
4
snakemake version 5.9.1 raised an error with get_deseq2_threads called as a pointer
Closed
a year ago
Comments count
1
SyntaxError in line 14 of Snakefile
Closed
a year ago
Comments count
1
read_distribution.py
Closed
a year ago
Comments count
1
count-matrix.py
Closed
a year ago
Comments count
4
Costum genome as reference
Closed
a year ago
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1
config.yaml defaults
Closed
a year ago
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1
Error in code
Closed
a year ago
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1
Multiqc error: module 'collections' has no attribute 'Mapping'
Closed
a year ago
Comments count
3
Data availability?
Closed
a year ago
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2
snakedeploy fails to deploy workflow
Closed
2 years ago
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3
Pipeline is delisted in Snakemake workflow catalog
Closed
2 years ago
Comments count
1
deseq2-init.R returned non-zero exit status 1.
Closed
5 years ago
Comments count
18
Ubuntu 18.04.2 LTS - raise sp.CalledProcessError(retcode, cmd)
Closed
5 years ago
Comments count
4
Missing input files for rule rseqc_gtf2bed
Closed
5 years ago
Comments count
3
More a discussion point: Should trimming be made optional
Closed
5 years ago
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2
`count-matrix.py` isn't for stranded RNA-seq protocols
Closed
5 years ago
Comments count
2
Adjusting output based on multiple types of input (single end vs paired end)
Closed
6 years ago
Comments count
2
rseqc version 3.0.0
Closed
5 years ago
Comments count
1
Prefered way to do several idependent runs
Closed
5 years ago
Comments count
10
Rule count_matrix job submission fails when used with --cluster parameter
Closed
6 years ago
Comments count
3
How to add quality control step (fastq_screen) to pipeline
Closed
6 years ago
Comments count
2
Confusion about the trimming for single-end data
Closed
6 years ago
Comments count
2
deseq2 error in SummarizedExperiment and GenomicRanges
Closed
7 years ago
Comments count
2