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BEDOPS v2.4.26: high-performance genomic feature operations
BEDOPS v2.4.26 is a suite of tools to address common questions raised in genomic studies — mostly with regard to overlap and proximity relationships between data...2547 days ago
miniasm: very fast OLC-based de novo assembler for noisy long 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 outp...2379 days ago
Dot, an interactive viewer for genome-genome comparison
...are method for aligning genome assemblies. A quick script called DotPrep.py converts the delta file to a more streamlined coordinates file with an index that enables Dot to read in m...2331 days ago
- BioCircos.js is an open source interactive Javascript library which provides an easy way to interactive display biological data on the web. It implement...
2325 days ago
- ...billion bases. We used it in a variety of applications to study the genomes of maize and other plant species. In particular, Tallymer was used to index a set whole genome shotgun se...
2299 days ago
G-compass: a comparative genome browser
G-compass (http://www.h-invitational.jp/g-compass/) is a comparative genome browser. It visualizes evolutionarily conserved genomic regions between human and other 12...2243 days ago
DendroPy: a Python library for phylogenetic computing
DendroPy is a Python library for phylogenetic computing. It provides classes and functions for the simulation, processing, and manipulation of phylogenetic trees and c...2232 days ago
HISAT2: a fast and sensitive alignment program for mapping next-generation sequencing reads
...2014], we designed and implemented a graph FM index (GFM), an original approach a...knowledge. In addition to using one global GFM index that represents a population...curate alignment of sequencing reads. This new indexing scheme is called a Hierarc...2217 days ago
SEX-DETector: A Probabilistic Approach to Study Sex Chromosomes in Non-Model Organisms
SEX-DETector is a probabilistic method that relies on RNAseq data from a cross (parents and progeny of each sex) to infer autosomal and sex-linked genes (genes located...2194 days ago
- TAndem REpeat ANalyzer -TAREAN – is a computational pipeline for unsupervised identification of satellite repeats from unassembled sequence r...
2210 days ago
