Introduce the optional use of a samplesheet to simplify the input/channel path names

mycobactopia-org / MTBseq-nf

MTBSeq made simple and easy using Nextflow and nf-core standard.

https://doi.org/10.5281/zenodo.5498063

MIT License

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Introduce the optional use of a samplesheet to simplify the input/channel path names #11

Closed abhi18av closed 3 years ago

abhi18av commented 3 years ago

Perhaps it might be a good idea to ask the user to specify a samplesheet in a csv/tsv format which we can use to parse out the values for library, sampleID etc.

Sub-tasks

[x] Create a utility function to simply rename each sample as per the derived pattern based on this samplesheet.
[x] Allow users to specify the SRA ids
[x] #33

abhi18av commented 3 years ago

The final changes for accomodating the CSV/TSV file for data values would be covered as part of #33