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#Target 4 and #HSPS 1 with #blast $ blastn -task megablast -query brkSeq.fa -db myDBAvaga -evalue 1e-5 -num_threads 1 -max_target_seqs 4 -max_hsps 1 -outfmt '6' -out output

A tool for converting for recovering synteny blocks from multiple alignment (in MAF fromat) This tool is a standalone version of Ragout module [http://fenderglass.github./Ragout]

Progressive Cactus is a whole-genome alignment package. Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules https://github.com/glennhickey/progressiveCactus

This page contains the software ANGES 1.01, that aims at reconstucting ancestral genome maps from homologous markers in extant related genomes. Download Program, version 1.01 (July 10, 2012, documentation updated in August 2014) Examples...

We describe a new method for predicting the ancestral order and orientation of those intervals from their observed adjacencies in modern species. We combine the results from this method with data from chromosome painting experiments to produce a map...

#Training http://ce3c.ciencias.ulisboa.pt/index.php

Understanding the terms used in QUAST http://quast.bioinf.spbau.ru/manual.html

Australian Bioinformatics jobs at https://au.jora.com/j?q=bioinformatics&l=&sp=homepage#

A full-featured & carefully designed adaptive prompt for Bash & Zsh https://github.com/nojhan/liquidprompt #Shell #Zsh #Bash

NCBI Prokaryotic Genome Annotation Pipeline is designed to annotate bacterial and archaeal genomes (chromosomes and plasmids). Genome annotation is a multi-level process that includes prediction of protein-coding genes, as well as other functional...

Quickly #Finding #Orthologs as Reciprocal Best #Hits with #BLAT, #LAST, and #UBLAST: How Much Do We Miss? http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0101850

ERGO 2.0 provides a systems biology informatics toolkit centered on comparative genomics to capture, query, and visualize sequenced genomes.  Using Igenbio's proprietary algorithms, and the most comprehensive genomic database integrated with...