issues
search
maxplanck-ie
/
snakepipes
Customizable workflows based on snakemake and python for the analysis of NGS data
http://snakepipes.readthedocs.io
MIT License
374
stars
85
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
ruamel.yaml vs pyyaml
#967
WardDeb
opened
5 months ago
0
ruamel - fix ChIPtests
#966
WardDeb
closed
5 months ago
4
Seacr ks
#965
katsikora
closed
5 months ago
0
Bump readthedocs-sphinx-search from 0.1.1 to 0.3.2 in /docs
#964
dependabot[bot]
closed
5 months ago
1
correct paths in pre-shipped MM39 ref
#963
WardDeb
closed
5 months ago
0
CellBender from StarSolo output
#962
davidsanin
closed
6 months ago
1
Docs
#961
WardDeb
closed
6 months ago
0
fix csaw sample sheet path for multiple comparisons
#960
katsikora
closed
6 months ago
0
ChIP-seq and ATAC-seq mutliple comparisons
#959
katsikora
closed
6 months ago
1
memory resources allelic mode
#958
WardDeb
closed
7 months ago
0
Develop
#957
katsikora
closed
7 months ago
0
added FDR as cli arg to mRNAseq
#956
katsikora
closed
7 months ago
0
make splitSampleSheet more flexible and include any column between name and condition
#955
katsikora
opened
8 months ago
0
createIndices error
#954
ppswang
closed
4 months ago
2
spikeIn sampe scaling factor calculation discrepenses
#953
sunta3iouxos
closed
3 months ago
2
fix 945
#952
katsikora
closed
8 months ago
0
[request] implemantation of SEACR
#951
sunta3iouxos
closed
4 months ago
1
MACS2 not using proper effective genome size
#950
sunta3iouxos
closed
8 months ago
4
in chip-seq paired mode is not used for MACS2
#949
sunta3iouxos
closed
3 months ago
6
[Question] bam Coverage bw files clarification
#948
sunta3iouxos
closed
8 months ago
2
ChIP-seq CSAW group
#947
sunta3iouxos
closed
4 months ago
1
CSAW pipeline
#946
sunta3iouxos
closed
4 months ago
4
error in chip-seq using Genrich as mapper
#945
sunta3iouxos
closed
4 months ago
21
Fix pca wgbs
#944
katsikora
closed
8 months ago
0
memory for plotCorr_bed_spearman
#943
roddypr
closed
4 months ago
3
Error in rule Bowtie2
#942
sunta3iouxos
closed
7 months ago
6
WGBS QC Report: wrong mapping rate and PCR duplication rate
#941
hanrong498
closed
4 months ago
2
Fix cache path
#940
katsikora
closed
8 months ago
0
snakePipes installation fails with python 3.12.0
#939
katsikora
closed
4 months ago
2
WGBS produceReport: Error in `read.bismark()`
#938
hanrong498
closed
9 months ago
4
include the workflow in run.done file
#937
WardDeb
closed
8 months ago
0
WGBS: unrecognized reference name ""; treated as unmapped
#936
hanrong498
closed
4 months ago
14
Temporary directory
#935
hanrong498
closed
9 months ago
1
threeprimeseq deseq2 on cluster counts
#934
katsikora
closed
9 months ago
0
genome.fa from URL
#933
hanrong498
closed
4 months ago
1
createIndices error on cluster (sorry for spaming!)
#932
sunta3iouxos
closed
9 months ago
3
request for post DNA-mapping pipelines feature
#931
sunta3iouxos
closed
9 months ago
3
blackelist in DNA mapping
#930
sunta3iouxos
closed
9 months ago
2
sbatch: error: Batch job submission failed: Node count specification invalid
#929
sunta3iouxos
closed
10 months ago
1
tmp folder statement "tmpdir=<TBD>"
#928
sunta3iouxos
closed
4 months ago
2
Further cleanup of mode Gruen and misc
#927
katsikora
closed
10 months ago
0
continuation from #924, warnings.warn("fragmentSize.metric.tsv is empty, this sets
#926
sunta3iouxos
opened
10 months ago
12
Question regarding spikeIns
#925
sunta3iouxos
closed
8 months ago
1
no spikeIn chromosomes found with extention _spikein
#924
sunta3iouxos
opened
10 months ago
12
Removed mode Gruen from scRNAseq entirely
#923
katsikora
closed
10 months ago
0
updated documentation after moving SalmonIndex
#922
katsikora
closed
10 months ago
0
rename `--skipVelocyto` to sth like `--skipVelocityCounts`
#921
katsikora
closed
10 months ago
0
reason: Missing output files
#920
sunta3iouxos
closed
10 months ago
2
WorkflowError in line 187
#919
sunta3iouxos
closed
10 months ago
2
possibility to have readable envs?
#918
sunta3iouxos
closed
10 months ago
1
Previous
Next