Added multi chimera steps. porechop, vsearch and blast methods. - #38
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chriswyatt1 wants to merge 1 commit into
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Added multi chimera steps. porechop, vsearch and blast methods. #38chriswyatt1 wants to merge 1 commit into
chriswyatt1 wants to merge 1 commit into
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For the blast step, it looks for similar hits between the two halves. Searches the top 10 blast hits by default, and checks if they correspond. There is a way to set the number of top blast hits to check. |
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All are optional. I ran the pipeline with all options separately, and they all perform as expected.
We still need a good test dataset to make sure the chimeras as truly detected, and not filtering "good" reads.
PR checklist
nf-core pipelines lint).nextflow run . -profile test,docker --outdir <OUTDIR>).nextflow run . -profile debug,test,docker --outdir <OUTDIR>).docs/usage.mdis updated.docs/output.mdis updated.CHANGELOG.mdis updated.README.mdis updated (including new tool citations and authors/contributors).