2503 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
kallisto Transcript abundance quantification from RNA-seq...les of the RNA-seq paired-end reads Software (Java) https://gi...irectly from raw NGS sequence reads by counting unique k-me...ird-generation long and noisy reads (10 kbp) using a dimensional...classification of metagenomic reads...2385 days ago
2365 days ago
2365 days ago
Run miniasm assembler on nanopore reads !
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and output...s not have a consensus step. It simply concatenates pieces of read...2344 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
BBSplit internally uses BBMap to map reads to multiple genomes at once,...ns an exact repeat somewhere, reads mapping to it will be mapped...you want to determine whether reads are mouse or human, it does..., either quantifying how many reads go to each reference, or spl...file for each of them. Paired reads...2328 days ago
List of visualization tools for genome alignments
Genome browsers are useful not only for showing final results but al...lts. But sometime, we need publication ready figure of genomes. Following...bsp; Java Visual Mapping tool for NGS reads http://www.springer.com/cda...icViewer Visualization of short read...2298 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 too...number between 0 and 7. 7 — full permissions 6 — read and write only 5 — read...2295 days ago
Awk for Bioinformatician and computational biologist
Awk is a programming language which allows easy manipulation of structure...The working of Awk is as followsAwk reads the input files one line at...as follows: BEGIN { Actions before reading the file}{Actions for ever...er file in addition to the one you are readi...2294 days ago
Some useful Bioinformatics links
Reference-free prediction of rearrangement breakpoint reads | Bioinformatics | Oxford Ac...axonomy/term/131 De novo long-read assembly of a complex animal...TULIP - The Uncorrected Long read Itegration Pipeline https://...apping of nanopore sequencing reads with GraphMap | Nature Commu...2256 days ago