Ra assembler - a de novo DNA assembler for third generation sequencing data
Integration of the Ra assembler - a de novo DNA ass...eveloped on Faculty of Electrical Engineering and Computing (FER), Ruder Boskovic Institute (RBI) and Genome Institute of Singapore (GIS). Ra...on detecting overlaps using a very sensitive and specif...2348 days ago
3d-dna: 3D de novo assembly (3D DNA) pipeline
This code is designed to enable anyone to reproduce the Hs2-HiC and the AaegL4 genomes reported in:&n...elds chromosome-length scaffolds. Science, 2017. Unless otherwise...ow is consistent with this paper, and all references to figures and...addition, the pipeline uses tools and method...2348 days ago
LRCstats: Long Read Correction Statistics
LRCstats is an open-source pipeline...y third generation sequencing technology such as machines produced by Pacific Biosciences. The reads produced by third generation sequencing technology, as the name suggests,...uncorrected long reads (uLR) and the corresponding sequences in the r...2340 days ago
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PhyloGrapher - Graph Visualization Tool
PhyloGrapher is a program designed to visualize and study evolutionary relationships within families of homologous genes or proteins (elements). PhyloGrapher is a drawi...2279 days ago
EWAS: epigenome-wide association study software 2.0
EWAS2.0 can analyze EWAS data and identi...on between epigenetic variations and disease/phenotype. On the bas...tion epigenetic framework” and can perform: (1) epigenome-wide single marker association study; (2) epigenome-wide methyla...aplotype (meplotype) association study; and (3) ep...2265 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 on the non recombini...he same sequencing data can be used for the assembly and for th...2195 days ago
2189 days ago
RestrictionDigest: A powerful Perl module for simulating genomic restriction digests
RestrictionDigest can simulate the reference genome digestion and generate comprehensive information...estion, double-enzyme digestion and size selection process. It ca...yze multiple genomes at one run and generates concise comparison...er published online (http://www.sciencedirect.com/science/ar...2182 days ago