maxplanck-ie/snakepipes
Customizable workflows based on snakemake and python for the analysis of NGS data
PythonMIT
Issues
- 0
bowtie --cutntag -X 700, ATAC-seq, maxfragment size
#1057 opened by sunta3iouxos - 0
shift read correction for ATAC/Cut&Tag
#1056 opened by sunta3iouxos - 2
feature request? pepatac
#1053 opened by sunta3iouxos - 5
error in createEnvs
#1050 opened by Leif78 - 2
snakePipes 3.0.0 logging
#1051 opened by katsikora - 4
conda-env create is using /tmp
#1049 opened by katsikora - 3
dependency issues wgbs
#1044 opened by sunta3iouxos - 3
error while running the DNA-mapping
#1045 opened by sunta3iouxos - 1
Add ChIPQC
#1048 opened by katsikora - 0
TO-DO before upcoming release
#969 opened by katsikora - 1
- 6
plotFinger fails due to insaficient wall time
#1011 opened by sunta3iouxos - 1
- 2
MACS3 in pipeline
#1019 opened by sunta3iouxos - 4
issue with multiqc
#1022 opened by sunta3iouxos - 0
pairtools - todos
#1026 opened by WardDeb - 3
illegal regex - 3.0.0
#1029 opened by WardDeb - 0
smk profile checks - 3.0.0
#1031 opened by WardDeb - 0
graphviz - DAG plotting
#1032 opened by WardDeb - 0
conda-recipe - 3.0.0
#1028 opened by WardDeb - 2
MACS2_peak_qc
#1025 opened by LeilyR - 1
setting_up - documentation 3.0.0
#1027 opened by WardDeb - 1
update the snakePipes installed from the github
#1007 opened by sunta3iouxos - 1
logs - 3.0.0
#1030 opened by WardDeb - 1
mamba vs conda
#983 opened by WardDeb - 0
move from setup.py to pytoml
#975 opened by katsikora - 3
error in samtools sort
#1021 opened by sunta3iouxos - 1
predictChIPDict for samples without input
#1024 opened by LeilyR - 3
- 1
- 2
human reference genome, no_alt and PARY
#1018 opened by sunta3iouxos - 1
snakePipes createEnvs fails
#1016 opened by musikutiv - 0
- 2
error in ChIP-seq
#1006 opened by sunta3iouxos - 2
[Question] where to find the exact command issued?
#1012 opened by sunta3iouxos - 0
- 2
- 0
fix SEACR with control
#1001 opened by katsikora - 0
- 0
fix nearest Gene annotation on CSAW_DBR
#996 opened by katsikora - 0
add allelic-counting mode to mRNA seq
#1000 opened by katsikora - 0
Genrich -e option addition
#997 opened by sunta3iouxos - 1
add peak qc for SEACR as for MACS2
#998 opened by katsikora - 2
conda and "strict channel priorities"
#993 opened by sunta3iouxos - 3
error in createIndices: module 'pulp' has no attribute 'list_solvers'. Did you mean: 'listSolvers'?
#991 opened by sunta3iouxos - 4
snakePipes envInfo: AttributeError: 'NoneType' object has no attribute 'encode'
#992 opened by sunta3iouxos - 0
- 0
test boa for building snakePipes
#974 opened by katsikora - 0
fix `--predictChIPDict` for cutNX
#973 opened by katsikora - 0
ruamel.yaml vs pyyaml
#967 opened by WardDeb