2501 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
kallisto Transcript abundance quantification from RNA-seq data (uses pseudoalignme...containing long sequence (e.g., ONT or PacBio reads, draft genomes) Software (Perl) https://github.com/warrenlr...2383 days ago
2363 days ago
Single Cell RNAseq data analysis tutorial !!
A major breakthrough (replaced microarrays) in the late 00’s and has been widely used since Measures the average expression level for each gene acro...2363 days ago
Edit distance application in bioinformatics !
There are other popular measures of edit distan...@distances"; # prints "2 0 3" use Algorithm::LCSS qw( LCSS CSS CSS_Sorted...amerau defaults to using a pure perl implementation, but if you've... Text::Fuzzy::PP is a pure perl implementation of the same in...2353 days ago
Bioinformatics Web Application Development with Perl
...dash;were easy to create with Perl and CGI. Thanks to Perl's ubiquity as a language for...faces and powerful backends. Perl is still well suited for deve...most mature of the modern top Perl web frameworks, yet it retain...ode. Because it builds on the Perl DBI, it scales everywhere fro...2334 days ago
PerlOneLiner for Bioinformatician
FILE SPACING------------ # Double space a fileperl -pe '$\="\n"'perl -pe 'BEGIN { $\="\n" }'perl -pe '$_ .= "\n"'perl -pe 's/$/\n/'perl -nE 'say' # Double space a f...permutations of a listperl -MAlgorithm::Permute -le '$l = [1,2,3,4,5]; $p = Algorithm::Permute->new($l); pr...2314 days ago
List of visualization tools for genome alignments
Genome browsers are useful not only for showing final results but also for improving analysis protocols, testing data quality, and generating result drafts. Its i...2296 days ago
Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
The purpose of this cheat sheet is to introduce biologist and bioinformatician to the frequently used tools for NGS analysis as well as giving experience in writing on...2293 days ago
Bioinformatics tools to detect horizontal gene transfer (HGT) in genomes
Horizontal gene transfer (HGT), the “non-sexual movement of genetic material between two organisms” , is relatively common in prokaryotes and single-c...862 days ago