bacterial-genomics wf-paired-end-illumina-assembly issues

bacterial-genomics / wf-paired-end-illumina-assembly

pathogen agnostic general workflow for genome assembly of Illumina paired-end sequence data

Apache License 2.0

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issues

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Add Summary TSV on downsampling

#95 chrisgulvik opened 2 months ago
0
Dev store downsample data

#94 chrisgulvik opened 2 months ago
1
XLSX creation fails with CheckM2 or RDP invoked

#93 chrisgulvik opened 2 months ago
4
Refactor profiles for use in Seqera Tower and add tower yaml for reports

#92 slsevilla closed 2 months ago
0
increase RAM for RDP when using Rosalind HPC config file

#91 chrisgulvik opened 6 months ago
0
Add SKESA parameters to main params.config

#90 gregorysprenger closed 2 months ago
0
Update version of Hostile host removal docker container

#89 gregorysprenger opened 7 months ago
0
Round memory down for SPAdes

#88 gregorysprenger closed 2 months ago
1
SPAdes fails when non-integer specified for RAM

#87 chrisgulvik opened 7 months ago
0
v2.3.0 dev into main

#86 chrisgulvik closed 7 months ago
1
merge all not just 1 sample in Summaries/*tsv

#85 chrisgulvik closed 7 months ago
0
RDP header line in Summary.RDP.tsv

#84 chrisgulvik closed 7 months ago
0
Dev fastp

#83 chrisgulvik closed 7 months ago
1
Dev subworkflow assembly assessments

#82 chrisgulvik closed 7 months ago
1
Fix Summary Header new line break in remove_phix_bbduk module

#81 taylorpaisie closed 7 months ago
0
Add outdir to README's quick start test command

#80 gregorysprenger closed 7 months ago
0
Append docker.io to all docker hub containers

#79 gregorysprenger opened 8 months ago
0
Fix SKESA memory issues and update status badge for MegaLinter

#78 gregorysprenger closed 7 months ago
1
Set max resources for github action

#77 gregorysprenger closed 8 months ago
1
bump to v2.2.1

#76 chrisgulvik closed 8 months ago
1
Remove nf-core lint from PR checklist

#75 gregorysprenger opened 8 months ago
0
Patch: Updates to fix some minor issues

#74 gregorysprenger closed 8 months ago
0
Check if input FastQ files are corrupted

#73 gregorysprenger closed 8 months ago
0
When bash wrapper scripts parse BBDuk results, they are on a new line

#72 gregorysprenger closed 7 months ago
0
Update path to Kraken1 database

#71 gregorysprenger closed 8 months ago
0
GitHub actions have permission issues with making comments and commits in pull requests

#70 gregorysprenger closed 7 months ago
1
Replace baseDir with projectDir due to deprecation in latest version of nextflow

#69 gregorysprenger closed 8 months ago
0
update release version to 2.2.0

#68 chrisgulvik closed 8 months ago
1
Ignore FastA files when using gitleaks linter

#67 gregorysprenger closed 8 months ago
0
Fix rdp issue with output file names

#66 taylorpaisie closed 8 months ago
0
fixing RDP file check warning

#65 taylorpaisie closed 8 months ago
1
GitLeaks in MegaLinter is not ignoring FastA files

#64 gregorysprenger closed 8 months ago
1
Update module addition documentation to add summary files to channel

#63 gregorysprenger opened 8 months ago
0
Removing RDP warnings

#62 taylorpaisie closed 8 months ago
0
Summarize QA files, convert tsv to xlsx, and create xlsx summary report

#61 gregorysprenger closed 8 months ago
1
Replace baseDir with projectDir due to deprecation

#60 gregorysprenger closed 8 months ago
0
Silence warns when miniburk skesa test run performed

#59 chrisgulvik closed 8 months ago
0
Silence RDP param warnings

#58 chrisgulvik closed 8 months ago
0
Expand docs to describe how another person can edit an active pull request's code

#57 chrisgulvik opened 9 months ago
0
Update image themes

#56 gregorysprenger closed 9 months ago
0
Use MegaLinter to lint and attempt autofixing issues

#55 gregorysprenger closed 9 months ago
0
GitHub updated how images are used based upon a user's theme

#54 gregorysprenger closed 9 months ago
0
use team-wide Kraken1 db in runner script

#53 chrisgulvik closed 8 months ago
0
Concatenate kraken summaries and place in summary directory

#52 gregorysprenger closed 9 months ago
0
Add header to BLAST output file

#51 gregorysprenger closed 9 months ago
0
Patch for host removal and kraken2 db

#50 gregorysprenger closed 9 months ago
0
Header needed for BLASTn output file

#49 gregorysprenger closed 9 months ago
0
Find command in quay containers cannot use megabyte/gigabyte in size parameter

#48 gregorysprenger opened 9 months ago
1
Rdp module

#47 taylorpaisie closed 9 months ago
0
Concatenate all kraken summary files

#46 gregorysprenger closed 9 months ago
0