issues
search
Plant-Food-Research-Open
/
assemblyqc
A Nextflow pipeline for evaluating assembly quality
https://plant-food-research-open.github.io/assemblyqc/
MIT License
26
stars
4
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Add extra parameters for MUMme/Circos/dotplot workflow
#182
CeciliaDeng
opened
2 days ago
7
Kraken2 DB: missing pyrus
#181
CeciliaDeng
opened
2 days ago
0
pfr_assemblyqc: please use the latest Nextflow version on pP
#180
CeciliaDeng
opened
2 days ago
1
Parameter validation failed for --hic
#179
GallVp
opened
1 week ago
3
Update the flowchart
#178
GallVp
opened
2 weeks ago
0
Excluded included_configs from linting
#177
GallVp
closed
2 weeks ago
1
Release 2.2.0
#176
GallVp
closed
2 weeks ago
1
Updated PFR's Kraken 2 and started using _JAVA_OPTIONS in RUNASSEMBLYVISUALIZER
#175
GallVp
closed
2 weeks ago
1
Added OrthoFinder and updated the tube map
#174
GallVp
closed
2 weeks ago
1
Add a validation check for 100% `N`s in a sequence
#173
GallVp
opened
2 weeks ago
0
Added the fastp log to the final report
#172
GallVp
closed
3 weeks ago
1
Added the HiC QC report to the final report
#171
GallVp
closed
3 weeks ago
1
Update PFR Kraken2 database
#170
GallVp
closed
2 weeks ago
0
Enquiry: Kraken2 result. Pear sequences tagged as apple
#169
CeciliaDeng
opened
3 weeks ago
4
completed permanentFail
#168
CeciliaDeng
opened
3 weeks ago
11
Add Orthofinder
#167
GallVp
closed
2 weeks ago
0
Update flow chart
#166
GallVp
closed
2 weeks ago
0
Added parameter `hic_samtools_ext_args`
#165
GallVp
closed
4 weeks ago
1
Added explicit revision param to docs
#164
GallVp
closed
4 weeks ago
1
Add HiC FastQC stats to the report
#163
GallVp
closed
2 weeks ago
1
Add `HICQC` stats to the final report
#162
GallVp
closed
2 weeks ago
0
samblaster not found
#161
CeciliaDeng
opened
1 month ago
3
Update docs to explicitly specify `-revision` parameter
#160
GallVp
closed
2 weeks ago
0
PCR duplicates are not removed in the HiC workflow
#159
GallVp
closed
2 weeks ago
1
Increased memory requirement for DNADIFF to avoid SLURM OOM kills with exit code 2
#158
GallVp
closed
1 month ago
1
Added a sequence labels table below the HiC contact map
#157
GallVp
closed
1 month ago
1
Updated template to version 3.0.2
#156
GallVp
closed
1 month ago
1
Added text/html as content mime type for the report file
#155
GallVp
closed
1 month ago
1
Now using nf-test for pipeline level testing
#154
GallVp
closed
1 month ago
1
Add pipeline level nf-tests
#153
GallVp
closed
2 weeks ago
0
Updated samtools faidx to 1.21
#152
GallVp
closed
1 month ago
1
Updated nf-core/template to 3.0.1
#151
GallVp
closed
1 month ago
1
Updated nf-core/template to 3.0.0
#150
GallVp
closed
1 month ago
2
Template update to 3.0.0
#149
GallVp
closed
2 weeks ago
0
Fixed a bug where Gene score distribution graph did not appear correctly
#148
GallVp
closed
1 month ago
1
There are no sequence labels on the HiC contact map
#147
GallVp
closed
2 weeks ago
1
Add MIME type as `text/html` for the report
#146
GallVp
closed
2 weeks ago
0
Added gfastats
#145
GallVp
closed
1 month ago
1
Reduced the GenomeTools stats figures to 300 DPI and set `synteny_mummer_min_bundle_size` is set to `1000000`
#144
GallVp
closed
1 month ago
1
Version bumped to 2.2.0+dev
#143
GallVp
closed
1 month ago
1
Reduce report load time
#142
GallVp
closed
2 weeks ago
0
DNADIFF is killed by out of memory signal on SLURM
#141
GallVp
closed
2 weeks ago
1
Fixed the branch protection GitHub action
#140
GallVp
closed
2 months ago
1
Candidate for 2.1.1
#139
GallVp
closed
2 months ago
2
Formatted mermaid chart
#138
GallVp
closed
2 months ago
1
Version bump to 2.1.1
#137
GallVp
closed
2 months ago
1
Now correctly validating gff files for circular sequences
#136
GallVp
closed
2 months ago
1
Remove Bioconda `defaults` channel
#135
GallVp
closed
2 months ago
1
Fixed flowchart syntax to remove '\n'
#134
GallVp
closed
2 months ago
1
Updated modules to remove Bioconda `defaults` channel
#133
GallVp
closed
2 months ago
1
Next