Alignment-free sequence comparison tools available for next-generation sequencing data analysis
...apid determination of read compatibility with targets) Software (C++) https://pachterlab.github.io/kallisto/...ion NGS data (can distinguish patients’ specific mutatio...g long sequence (e.g., ONT or PacBio reads, draft genomes) So...p://jordan.biology.gatech.edu/page/software/stringMLST Taxono...2415 days ago
2395 days ago
Single Cell RNAseq data analysis tutorial !!
...a large population of input cells Useful for comparative transcriptomics, e.g.&n...tor models applied to single-cell RNA-seq data separate biological drivers from c...r hierarchy inference of single-cell data using SPADE http://www.nature.com/npro...2395 days ago
Edit distance application in bioinformatics !
...TR2 ); # ref to array of strings There are many different modules on CPAN for calculating the edit dis...ed on edit weights. Text::Fuzzy provides a number of operations for partial or fuzzy matching of tex...2385 days ago
Converting BLAST output into CSV
...cific format. If the program is popular enough, there will be one or more parsers written for that format...t’ more later; for now, just think of it as a way to get ahold of a particular set of files. In this...2381 days ago
Tools for bacterial whole genome annotation
...notation in a flash, which is particularly useful if you have...nbsp;functional profiling and pathway analysis of your genome(...an upgraded version that is capable of processing a larger dat...was mainly created to analyze parasite genomes of up to about...2376 days ago
Run miniasm assembler on nanopore reads !
...sp;minimap2 -xava-ont ONT_A.fasta ONT_A.fasta -t10 -X > AONT.paf awk '{if($1==$6){print}}' AONT.paf > AONTself.paf awk '... Assemble with miniasm: miniasm -f ONT_A.fasta AONT.paf > AONT.gfa grep '^...2374 days ago
Bioinformatics Web Application Development with Perl
...lable in modern Perl are unsurpassed. In particular, a modern...do great things, but three in particular stand out. You can bu...ld things in better ways. In particular, Mojolicious goes to...ntioning the strength of the CPAN. Almost any project will ben...2366 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
...them, one of them, or put in a special "ambiguous" file for each of them. Paired reads will always be kept...q (unmapped reads)In this case, "int=t" means that the input file is paired and interleaved. For sing...2358 days ago
2349 days ago