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Summary tables for all samples #4

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angelovangel wants to merge 4 commits into imgag:master from angelovangel:master

angelovangel commented Mar 18, 2021

Hi Caspar, here the proposed changes in this PR:

add new nf process to output summy data for all samples, as usually many samples are analysed
add new R script for the above
add aro_index.tsv in data/, used to map aro accession to card id

Several points for future dev:

The html table output is pretty ugly now, will be prettified with e.g. DT::datatable
Add new test dataset with more samples
I noticed the GC-content and GC-skew calculations are pretty slow. There are quite fast implementations out there (also in R) that we could use to speed up
I prefer to work on my fork and make PRs here

angelovangel added 4 commits

March 13, 2021 16:49


          add summary table with all the samples

4e3c415


          add html summary table for all samples

b946286


          updates

a11b340


          error handling

76aaa60

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