Results for "plot"
Bio-Scripts
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....1093 days ago
- ...file that displays a triangular dot plot of the input sequence against itself, or a square plot against a second sequence w...left off. Completed runs can be re-plotted from the existing dot fi...ng($img, $outfile); print "Plot Complete!\n"; } sub p...
2684 days ago
- #!/usr/bin/perl use strict;use warnings; my $i;my $j;my $a; open (FH1,'
2684 days ago
Transpose the file coordinates and plot dendrogram in R
#Save this as tr.awk { for (i=1; i2608 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...2290 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) }...2275 days ago
- # Count k-mer occurrence using Jellyfish 2.2.6 jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? sread_1.fastq sread_2.fastq # points for a histogram jellyfish histo -o 19mer_out.histo 19mer_out #Plot results using R ##load the data into dataframe19 dataframe19
2255 days ago
- # generate dotplot lastdb test/ref.fa lastal -f TAB test/ref.fa test/contigs.reduced.pacbio.fa | last-dotplot - test/contigs.reduced.pacbio.fa.ref.png lastal -f TAB test/ref.fa test/contigs.reduced.nanopore.fa | last-dotplot - test/contigs.reduced.nanopore.fa.ref.png
2243 days ago
Plot custom gene density with R
library(karyoploteR) pp2241 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...2237 days ago
