Download genome using NCBI esearch command line !
...I for alignment free comparision #conda install -c bioconda fastani fastANI -q seq1.fa -r seq2.fa --visualize -o fastani.out #Plot using sequences Rscript plotSeq.R seq1.fa seq2.fa fastani....1064 days ago
2656 days ago
2656 days ago
Transpose the file coordinates and plot dendrogram in R
#Save this as tr.awk { for (i=1; i2580 days ago
Plot the clock using Lastz -gerenal outfile
use strict; use warnings; use Statistics::R ; use List::Util qw(sum); #Usage perl clockPlot.pl Palindrome.palfc 1500 my $R = Statistics::R->new() ; $R->startR ; my $fileN...2261 days ago
Plot the density of genes in R
...n2 = start position of the gene # check if ggplot2 is installed, if so, load it, # if not, install and load it if("ggplot2" %in% rownames(installed.pac...ary(ggplot2) } else { install.packages("ggplot2") library(ggplot2) }...2247 days ago
2227 days ago
2214 days ago
Plot custom gene density with R
library(karyoploteR) pp2212 days ago
Estimate Genome Size with Jellyfish and R
...r Base quality value. Version 2.2.3 of Jellyfish uses the “Phred” score, where "?" = 30 jellyfish histo -o 19mer_out.histo 19mer_out #Plot dataframe19...2208 days ago