kfukuta/wf-transcriptomes-v202
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Merge branch 'container_pychop_2.7.9' into 'dev'

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Container pychop 2.7.9

See merge request epi2melabs/workflows/wf-transcriptomes!135
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Neil Horner 2023-10-04 17:23:33 +00:00
commit 0a8fe19e7c
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README.md
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@ -142,6 +142,7 @@ Pychopper and minimap2 can take options via `--minimap2_opts` and `--pychopper_o
- SQK-PCS109: `--pychopper_opts '-k PCS109'` (default)
- SQK-PCS110: `--pychopper_opts '-k PCS110'`
- SQK-PCS111: `--pychopper_opts '-k PCS111'`
- SQK-LSK114: `--pychopper_opts '-k LSK114'`
- pychopper can use one of two available backends for identifying primers in the raw reads
- nhmmscan `--pychopper opts '-m phmm'`
- edlib `--pychopper opts '-m edlib'`

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docs/quickstart.md
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@ -67,6 +67,7 @@ Pychopper and minimap2 can take options via `--minimap2_opts` and `--pychopper_o
- SQK-PCS109: `--pychopper_opts '-k PCS109'` (default)
- SQK-PCS110: `--pychopper_opts '-k PCS110'`
- SQK-PCS111: `--pychopper_opts '-k PCS111'`
- SQK-LSK114: `--pychopper_opts '-k LSK114'`
- pychopper can use one of two available backends for identifying primers in the raw reads
- nhmmscan `--pychopper opts '-m phmm'`
- edlib `--pychopper opts '-m edlib'`