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aide

AIDE: annotation-assisted isoform discovery and quantification from RNA-seq data

amos

A clone of the official AMOS git repo on sourceforge: https://sourceforge.net/projects/amos/

astrap

AStrap: Identification of alternative splicing from transcript sequences without a reference genome

atac-seq

Basic workflow for ATAC-seq analysis

blast

ncbi-blast-2.7.1

bowtie2

A fast and sensitive gapped read aligner

bubbz

canu

A single molecule sequence assembler for genomes large and small.

cirgo

confold2

Improved ab initio protein structure reconstruction

cp-hap

Estimate the ratio of different directions of single copy in the chloroplast genome

cs_books

Books in Computer Science

deepvirfinder

Identifying viruses from metagenomic data by deep learning

dgenies

Dotplot large Genomes in an Interactive, Efficient and Simple way

docker-install

Docker installation script

docker-tutorial

dotplotly

Generate an interactive dot plot from mummer or minimap alignments

ensemblecnv

evidencemodeler

source code for EVM

evmutation

Mutation effects predicted from sequence co-variation

exonerate-gff3

exonerate fork with added gff3 support

fast-plast

Automated de novo assembly of whole chloroplast genomes.

firebug

Web Development Evolved - The Firebug you have known and loved

flair

Full-Length Alternative Isoform analysis of RNA

genrich

Detecting sites of genomic enrichment

getorganelle

Get organelle genomes from genome skimming data

gkmsvm

gkmSVM R package

googletest

Googletest - Google Testing and Mocking Framework

hello-world

test

hmmratac

HMMRATAC peak caller for ATAC-seq data