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 out...2334 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
BBSplit internally uses BBMap to map reads to multiple genomes at once, and determine which genome they match best. This is different than with ordinary mapping. If a...2318 days ago
List of visualization tools for network biology
...3D 3D visualization of multi-layer networks http://www.arena3d.org Biana Data integration and network management http://sbi.imim.es/web/BIANA.php BioLayout Express 3D ...2292 days ago
Computational resources for TE discovery and TE detection
...pment/blaster/ Censor http://www.girinst.org/censor/download.php find_ltr http://d...st.wustl.edu/maskeraid/ mer-engine http://mer-engine.cshl.edu/mer-home.php mreps http://bioinfo.lifl.f...2278 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-...854 days ago
Python learning resources for bioinformatics and computational biologist !
Python is a general-purpose language, which means it can be used to build just about anything, which will be made easy with the right tools/libraries. Professionally...2259 days ago
Some useful Bioinformatics links
...de novo assembly? - SEQanswers http://seqanswers.com/forums/showthread.php?t=26721 samtools(1) manual pa...om/davfre/8596159 Inroduction to dot-plots http://www.code10.info/index.php%3Foption%3Dcom_content%26view...2246 days ago
Installing Bio::SCF perl module
...o-lib version 1.9 or higher from the Staden library (staden.sourceforge.net). This can be downloaded from https://sourceforge.net/project/showfiles.php?group_id=100316&package_i...2222 days ago
Ligand Docking Tools and Software !
Ligand docking referred to cases where small molecule (“ligand”) is being docked into much larger macromolecule ("target"). The following is partial list...2206 days ago
Tools for Protein-Protein Docking !
Predicting the structure of protein–protein complexes using docking approaches is a difficult problem whose major challenges include identifying correct solutio...2206 days ago