1261 days ago
Set up WGD environment using conda !
#Wgd cannot be installed directly with bioconda at present, so it is slightly troublesome to install, because it #depends on a lot of software. wgd depends on the following software #BLAST #MCL...1261 days ago
Install and set up i-adhore for synteny and wgd analysis ! -- step by step --
...rking C compiler: /usr/bin/cc - skipped -- Detecting C compile feat...ng CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile fe...it:(master) ✗ make -j 4 Scanning dependencies of target bmp Scanni...used-result] system(command.append(outputPath).c_str());...1261 days ago
Steps to install Conda on Linux !
...environment available conda info --envs # Create new environment named as `envname` conda create --name envname # Remove environment and its dependencies conda remove --name...1240 days ago
Converting from Windows-style to UNIX-style line endings with dos2unix
...o] password for bioqueen: Reading package lists... Done Building dependency tree Reading st...remove and 0 not upgraded. Need to get 351 kB of archives. After this operation, 1,267 kB of additional...1234 days ago
Install ATOM editor on Elemantory OS / Ubuntu
...Reading package lists... Done Building dependency tree Reading st...d to get 845 kB/127 MB of archives. After this operation, 698 MB of additional d...where is one of: ci, clean, config, dedupe, deinstall, delete, dev, deve...1233 days ago
Parse the NCBI taxonomy database with Perl !
...Eureka we found $sps, id is ", $nam->id, "\n"; # 9606 #$abc = $names{$speciesId}; my @taxa = $dbh->e...int $decision; #It return 1 of matches otherwise 0 #case-insesitive #Spelling mistake on classNode may...1230 days ago
Perl script to get all the descendent in a tree !
use warnings; use Bio::DB::Taxonomy; #Rotifera 10190 # Get one from a NCBI taxonomy database my $dbh = Bio::DB::Taxonomy->new(-source => 'flatfile',...1222 days ago
1221 days ago
Perl script to run awk inside perl
#!/usr/local/bin/perl eval 'exec /usr/local/bin/perl -S $0 ${1+"$@"}' if $running_under_some_shell; # this emulates #! processing on NIH machines. # (remove #! line above if indigestible...1221 days ago