nf-core/methylong
Extract methylation calls from long reads (ONT/ PacBio)
dna-methylationfiber-seqlong-readontpacbio
Version history
Updated
- Update the input samplesheet structure
Added
| New Content | Description |
|---|---|
dorado basecaller module |
basecalling for pod5 reads |
jasmine and ccsmeth module |
modcalling for raw PacBio HiFi bam reads |
fibertools modules |
m6A modification calling |
DMR_haplotype_level subworkflow |
haplotype-level DMR analysis |
DMR_population_scale subworkflow |
population-scale DMR analysis |
Dependencies
| Dependency | Old version | New version |
|---|---|---|
dorado |
0.9.5 | 1.1.1 |
jasmine |
2.4.0 | |
ccsmeth |
0.5.0 | |
DSS |
2.54.0 | |
fibertools |
0.6.4 | |
modkit |
0.4.4 | 0.5.0 |
samtools |
1.21 | 1.22.1 |
Requirements
- Nextflow
>=25.04.0
Contributors
- @YiJin-Xiong for implementing
fiberseq,dmr callingsubworkflows. - @jkh00 for code review, suggestions and template updates.
Initial release of the nf-core/methylong pipeline. 🔝
All history can be found here.
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open PRs
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last release
7 months ago
last update
7 months ago