WhatsHap: fast and accurate read-based phasing
WhatsHap is a software for phasing genomic variants using DNA sequencing reads, also...bsp;easy to install It is easy to use: Pass in a VCF and one or more BAM files, get out a phased VCF. Suppor...2197 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 output t...2165 days ago
JBrowse: Embeddable genome browser built completely with JavaScript and HTML5
...ase genomes and deep-coverage sequencing. Quickly open and view data files on your computer without uploa...ig, and VCF data are displayed directly from chunks of the compressed binary files, no conversion needed. Inclu...2165 days ago
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
KAT is a suite of tools that analyse jellyfish hashes or sequence files (fasta or fastq) using kmer c...-mers between two (or three) sequence files or hashes. sect: SEquence Co...or filtering k-mer hashes and FastQ/A files: kmer: Produces a k-mer ha...2010 days ago
2127 days ago
2126 days ago
Snippy: Rapid haploid variant calling and core SNP phylogeny
Snippy finds SNPs between a haploid reference genome and your NGS sequence reads. It...s). It is designed with speed in mind, and produces a consistent set of output files in a single folder. It can th...2053 days ago
LSC: Improving PacBio Long Read Accuracy by Short Read Alignment
Added Command line argument support. Multi-stage execut..._read_batch_size N. Better compressed intermediate files. Added utilities folder. Added support for multiple short read files. Removed use of configuratio...2096 days ago
KAST: Perform Alignment-free k-tuple frequency comparisons from sequences
Perform Alignment-free k-tuple frequency comparisons from sequences. This can be in the form of two input files (e.g. a reference and a query) or a single file for pairwise comparisons to be made.2082 days ago
VariantBam: Filtering and profiling of next-generational sequencing data using region-specific rules
VariantBam is a tool to extract/count specific sets of sequencing reads from next-generational sequencing files. To save money, disk space an...2068 days ago