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added function for generating lineage barplots and also test script along wiadding script for processing data and added it to get_plotting_dfs.R

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This commit is contained in:
Tanushree Tunstall 2021-09-06 19:50:50 +01:00
parent 605eb54526
commit 869fca7f94
6 changed files with 470 additions and 5 deletions
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6
dynamut/split_csv.sh
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@ -12,10 +12,12 @@ CHUNK=$3
mkdir -p ${OUTDIR}/${CHUNK}
cd ${OUTDIR}/${CHUNK}
# makes the 2 dirs, hence ../..
split ../../${INFILE} -l ${CHUNK} -d snp_batch_
#split ${INFILE} -l ${CHUNK} -d snp_batch_
# use case
#~/git/LSHTM_analysis/dynamut/split_csv.sh gid_mcsm_formatted_snps.csv snp_batches 50
#~/git/LSHTM_analysis/dynamut/split_csv.sh embb_mcsm_formatted_snps.csv snp_batches 50
~/git/LSHTM_analysis/dynamut/split_csv.sh pnca_mcsm_formatted_snps.csv snp_batches 50
#~/git/LSHTM_analysis/dynamut/split_csv.sh pnca_mcsm_formatted_snps.csv snp_batches 50
# add .txt to the files