Metagenomics Remove Human Reads #93
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would appreciate input on this!
…ow_Documentation/NF_MGEstHostReads-B/Estimate_Host_Reads.config to Metagenomics/Estimate_host_reads_in_raw_data/Workflow_Documentation/NF_MGEstHostReads-B/workflow_code/Estimate_Host_Reads.config
…ation/NF_MGEstHostReads-B/Estimate_Host_Reads.nf to Metagenomics/Estimate_host_reads_in_raw_data/Workflow_Documentation/NF_MGEstHostReads-B/workflow_code/Estimate_Host_Reads.nf
…ow_Documentation/NF_MGEstHostReads-B/workflow_code/Estimate_Host_Reads.config to Metagenomics/Estimate_host_reads_in_raw_data/Workflow_Documentation/NF_MGEstHostReads-B/workflow_code/config/Estimate_Host_Reads.config
bnovak32
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Aug 15, 2024
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Some general comments: the code blocks in the README need to be executable as-is. Ideally, we want users to be able to run the workflow example by copy/paste of the provided code blocks. As currently written, the README attempts to combine the genelab-utils based instructions from the snakemake workflows with the nextflow instructions from the nextflow workflows. Unfortunately, that is redundant/confusing. Pick one or the other. Further comments are in-line on the README, nextflow, and config files.
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..._raw_data/Workflow_Documentation/NF_MGRemoveHumanReads-A/workflow_code/Remove_Human_Reads.nf
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..._data/Workflow_Documentation/NF_MGRemoveHumanReads-A/workflow_code/Remove_Human_reads.config
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bnovak32
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Aug 15, 2024
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Co-authored-by: Barbara Novak <[email protected]>
…low_Documentation/NF_MGRemoveHumanReads-A/workflow_code/README.md to Metagenomics/Remove_human_reads_from_raw_data/Workflow_Documentation/NF_MGRemoveHumanReads-A/README.md corrected readme location and uploaded changes
making some fixes as per Barbara's comments
corrected variable name
small changes for clarity
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changed WF name, fixed some documentation, and removed the Estimate Host Reads WF from PR @bnovak32 @asaravia-butler