Perl script to run SATSUMA in loop !
#!/usr/bin/perl -w use strict; use File::Temp qw(tempfile); # Usage perl 1by1.pl for SATSUMA analysis # User need to set the reference multifasta file name her...2134 days ago
2131 days ago
2054 days ago
Generates a genome coverage plot with R
library(CoverageView) ##draw a coverage plot for a test case BAM file #get a BAM test file treatBAMfile2049 days ago
1998 days ago
CollectGcBiasMetrics.jar will generate a GC bias plot for each contig
samtools index aln-pe.mapped.sorted.bam for i in $(samtools view -H aln-pe.mapped.sorted.bam | awk -F"\t" '/@SQ/{gsub("^SN:","",$2);print $2}' ); do samtools view...1998 days ago
1519 days ago
1503 days ago
Set up WGD environment using conda !
...e-1.1.1-cp37-cp37m-manylinux1_x86_64.whl (27 kB) Collecting matplotlib>=3.0.2 Downloading matplotlib-3.3.3-cp37-cp37m-manylinux...nado, scikit-learn, PyYAML, python-utils, pandas, packaging, matplotlib, Jinja2, humanfriendly, sk...1197 days ago
788 days ago