open2c distiller-nf issues

open2c / distiller-nf

A modular Hi-C mapping pipeline

MIT License

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issues

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Singularity no space left in tmp directory

#189 SR-Epi-lab opened 3 months ago
0
Skip deduplication for libraries with UMI

#188 ChristopherBarrington opened 8 months ago
0
Distiller dsl2

#187 golobor closed 11 months ago
0
Help with "Error executing process > 'map_parse_sort_chunks...'

#186 jmteix closed 1 year ago
4
which reference should I cite?

#185 jane373 opened 1 year ago
1
filter with non-int columns

#184 Phlya opened 2 years ago
0
distiller 0.3.5 roadmap

#182 agalitsyna opened 2 years ago
1
Support of minimap2, bam mem2 and bwa aln

#181 agalitsyna opened 2 years ago
1
Docker update for pairtools 1.0*

#180 agalitsyna closed 2 years ago
0
update example cluster config - to match current distiller

#179 sergpolly opened 2 years ago
1
bam files recycling

#178 agalitsyna opened 2 years ago
0
distiller with an option to process with minimap2

#177 agalitsyna opened 2 years ago
0
library (group) names can't be numerical

#176 Phlya opened 2 years ago
0
how memory limit gets specified in cluster using

#175 ryao-mdanderson opened 2 years ago
0
Optional direct fastq downloads from ENA instead of sra-tools

#174 nvictus opened 2 years ago
0
Iterative mapping

#173 chorzow closed 2 years ago
2
Filter stats option.

#172 agalitsyna opened 2 years ago
18
Filter stats

#171 agalitsyna closed 2 years ago
1
Bug: split: output file suffixes exhausted

#169 efriman opened 3 years ago
0
Allow DRR accessions; add a comment line for sra-tools ncbi requirement

#168 agalitsyna closed 2 years ago
1
distiller-nf run failed at executing process > 'bin_zoom_library_pairs‘

#167 hzjsxu closed 3 years ago
1
Error: Process `map_parse_sort_chunks (library:HSPR2 run:lane1 chunk:0)` terminated with an error exit status (140)

#166 hzjsxu closed 3 years ago
4
Remove duplicate reads in sam/bam files

#165 zhang-jiankun closed 3 years ago
0
Fix zoomify with no balancing

#164 Phlya opened 3 years ago
1
Running without duplicates filtering

#163 magnitov closed 3 years ago
11
process from 4DN?

#162 gfudenberg opened 3 years ago
0
Error when trying to run on test dataset

#161 papelypluma closed 4 years ago
13
where can I get the specific instructions of the software

#160 rachelzhu123 closed 3 years ago
0
fastp missing from docker image?

#159 ChristopherBarrington closed 2 years ago
5
add phasing

#158 golobor opened 4 years ago
0
fastq-dump fails with "This sra toolkit installation has not been configured." when docker is disabled

#157 agalitsyna opened 4 years ago
1
unexpected end of file error

#156 sabrsyed closed 4 years ago
5
Option to use fastq-dump --split-files, instead of pyfilesplit

#155 mimakaev closed 4 years ago
5
What the algorithm is used for balancing Hi-C matrix?

#154 shappiron closed 4 years ago
1
add fastp trimmer to the docker image so users can do trimming if needed

#153 mimakaev opened 4 years ago
0
why doesn't distiller-nf require a restriction enzyme option?

#152 shenscore closed 4 years ago
2
trim option

#151 gspracklin closed 4 years ago
0
input verification - check if the folder doesn't already have ./work and ./results from tests

#150 golobor opened 4 years ago
0
[89/ab2821] NOTE: Process `map_parse_sort_chunks (library:your_library_name_1 run:lane1 chunk:0)` terminated with an error exit status (127) -- Execution is retried (1)

#149 gopel closed 4 years ago
4
Fixed testing commands example

#148 molsim closed 4 years ago
0
Input verification - ensure no duplicated input files

#147 Phlya opened 4 years ago
0
built-in adaptor trimming

#146 gspracklin opened 4 years ago
4
sra download seems to be broken now - some of the ftp links lead nowhere

#145 sergpolly opened 5 years ago
11
Have an option to use fastq-dump even to download a whole .sra file

#144 mimakaev opened 5 years ago
0
Set up travis deployment of docker image

#143 nvictus closed 5 years ago
0
having no map options, i.e. empty dict, leads to nextflow error

#142 sergpolly opened 5 years ago
1
distiller (bwa mem) cannot handle Hi-C data sequenced with 25bp

#141 sergpolly opened 5 years ago
9
update readme about custom HW profile

#140 sergpolly closed 5 years ago
2
update to latest cooler; bump version; docker to be rebuilt

#139 sergpolly closed 5 years ago
4
Ghpcc

#138 sergpolly closed 5 years ago
4