GMOL: An Interactive Tool for 3D Genome Structure Visualization
GMOL was developed based upon our multi-scale approach that allows a user to scale between six separate levels within the genome. With GMOL, a user can choose any unit at any scale and scale it up or down to visualize its structure and retrieve corresponding genome sequences.2298 days ago
repeat-aware: Repeat aware scaffolding evaluation framework by Igor Mandric
...put scaffolding to contigs in the reference scaffolding in the sense of the number of correct links. https://github.com/mandricigor/repeat-aware2298 days ago
EWAS: epigenome-wide association study software 2.0
EWAS2.0 can analyze EWAS data and identify the association between epigenetic variations and disease/phenotype. On the basis of EWAS1.0, we have added more distinctive features. EWAS2.0 software was developed ba...2298 days ago
AlignGraph: algorithm for secondary de novo genome assembly guided by closely related references
AlignGraph is a software that extends and joins contigs or scaffolds by reassembling them with help provided by a reference genome of a closely related organism. Using AlignGr...2271 days ago
2270 days ago
D3 javascript for visualization !
Welcome to the D3 gallery! More examples are available on bl.ocks.org/mbostock. If you want to share an example and don't have your own hosting, consider using Gist and bl.ocks.org. If you want to share or view live examples try vida.io.2266 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
...itively align PacBilo or Oxford Nanopore to (large) reference genomes. It was designed to quickly and corr...cluding those spanning (complex) structural variations. Ngmlr uses an SV aware k-mer search to find approx...2264 days ago
MITObim - mitochondrial baiting and iterative mapping
...described in Hahn et al. 2013. The full article can be found here. Kindly cite the article if you are using MITObim in your work. The pipeline was originally developed for&nbs...2251 days ago
HISAT2: a fast and sensitive alignment program for mapping next-generation sequencing reads
...alignment of sequencing reads. This new indexing scheme is called a Hierarchical Graph FM index (HGFM). more at https://ccb.jhu.edu/software/hisat2/index.shtml...2251 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
...ds involve using available best-of-breed gene prediction and assembly software, combining all evidence for...d and gene-transcript aligned (genome-free) locus identification. All software developed for EvidentialGen...2251 days ago