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finding seq discrepancy in MSA for embb

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This commit is contained in:
Tanushree Tunstall 2022-01-17 19:11:10 +00:00
parent af04c69d66
commit 68a092037b
4 changed files with 36 additions and 9 deletions
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25
scripts/functions/tests/test_logo_plots.R
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@ -1,4 +1,6 @@
source("~/git/LSHTM_analysis/config/gid.R")
#source("~/git/LSHTM_analysis/config/gid.R")
source("~/git/LSHTM_analysis/config/alr.R")
source("~/git/LSHTM_analysis/scripts/plotting/get_plotting_dfs.R")
################################
@ -56,3 +58,24 @@ LogoPlotSnps(plot_df = merged_df3
, leg_tts = 16 # leg title size
)
########################################
# Logo plot MSA
# Mutant and wild-type
# wild-type and mutant aa
# script: logoP_msa.R
########################################
# msa1 = read.csv("/home/tanu/git/Data/cycloserine/output/alr_msa.csv", header = F)
# head(msa1)
# msa_seq= msa1$V1
# head(msa_seq)
#
# msa2 = read.csv("/home/tanu/git/Data/cycloserine/input/alr.1fasta", header = F)
# head(msa2)
# wt_seq = msa2$V1
# head(wt_seq)
#
# # BOTH WORK
# LogoPlotMSA(msa_seq, wt_seq)
# LogoPlotMSA(msa1, msa2)