SOAP2 : Short Oligonucleotide Analysis Package 2
...is a member of the SOAP (Short Oligonucleotide Analysis Package). It is an update...space efficiency by a revolution in the basic data structures and algorithms used.The core algorithms and the indexing data structures (2way-BWT) are develop...2232 days ago
2227 days ago
SALSA: A tool to scaffold long read assemblies with Hi-C
This code is used to scaffold your assemblies using Hi-C data. This version implements some improvements in the original SALSA algorithm. If you want to use the old version, it can b...2209 days ago
minimap2: A versatile pairwise aligner for genomic and spliced nucleotide sequences
git clone https://github.com/lh3/minimap2 cd minimap2 && make # long sequences against a reference geno...inimap2 -a MT-human.mmi test/MT-orang.fa > test.sam # use presets (no test data) ....2204 days ago
CGView - Circular Genome Viewer
CGView is a Java package for generating high quality, zoomable maps of circular genome...r, allowing rapid genome browsing, and facilitating data sharing. The feature labels i...to be integrated with existing web site content or database...2204 days ago
AfterQC: Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data AfterQC can simply go through all fastq files in a folder and then...results of each fastq file/pair. Currently it supports processing data fro...2195 days ago
JBrowse: Embeddable genome browser built completely with JavaScript and HTML5
JBrowse is a fast, embeddable genome browser built completely with JavaS...ipt and HTML5, with optional run-once data formatting tools written in P...ge sequencing. Quickly open and view data files on your computer withou...d more. BAM, BigBed, BigWig, and VCF data are...2195 days ago
ASplice: a scalable and memory-efficient algorithm for de novo transcriptome assembly
With increased availability of de novo assembly algorithms, it is feasib...embly from high-throughput sequencing data, they are very memory-intensi...limiting their applications to small data sets with few libraries. T...that contain hundreds of gigabases of data. Ne...2191 days ago
2191 days ago
NAViGaTOR: Network Analysis, Visualization and Graphing Toronto
NAViGaTOR – Network Analysis, Visualization, & Graphing TORonto is a software system for scaleabl...scaleability, extends input/output options, brings new network views and analysis algorithms. http://142.150...2191 days ago