ARCS: scaffolding genome drafts with linked reads
ARCS requires two input files: Draft assembly fasta file Interleaved linked reads file (Barcode sequence expected in the BX tag of the read header or in the form "@readname_barcode" ; Run Long Ranger basic on raw chromium reads to produce this interleaved file)2027 days ago
FGENESH - Program for predicting multiple genes in genomic DNA sequences
FGENESH is the fastest (50-100 times faster than GenScan) and most accurate gene finder available - see the figure and the table below. In recent rice genome...2025 days ago
ALLHiC: Phasing and scaffolding polyploid genomes based on Hi-C data
The major problem of scaffolding polyploid genome is that Hi-C signals are frequently detected between allelic haplotypes and...scaffolding pipeline, called ALLHIC, specifically tailored to the polyploid genomes...2025 days ago
Genome Annotation using MAKER tutorial !
MAKER is a great tool for annotating a reference genome using empirical and ab initiogene predict...hing. Here I will describe a de novo genome annotation for Boa const...is easy to use this as a guide to annotate any genome.2024 days ago
Versatile genome assembly evaluation with QUAST-LG
QUAST-LG is an extension of QUAST intended for evaluating large-scale genome assemblies (up to mammalian-size). QUAST-LG is included in...on the assembly completeness and contiguity for a given genome...2023 days ago
GeneOverlap: An R package to test and visualize gene overlaps
Overlapping gene lists can reveal biological meanings and may lead to novel hypotheses. For example, histone modifi...on lysine 4 of histone H3 (H3K4me3) is associated with gene activation and its genome-...2017 days ago
2014 days ago
Hawkeye: an interactive visual analytics tool for genome assemblies
Genome sequencing remains an inexact science, and genome sequences can contain significant errors if the...d. Hawkeye is our new visual analytics tool for genome assemblies, designed to aid i...p;http://amos.sourceforge.net/hawkeye. https://genomeb...2013 days ago
GenoViz: Visualization software for genomics
GenoViz provides software applications and re-usable components for data visualization...ng in genomics. Our flagship product is Integrated Genome Browser (IGB).For more inform...bsp;http://www.bitbucket.org/lorainelab/integrated-genome-...2012 days ago
GenomeView: genome browser and annotation editor
GenomeView is a genome browser and annotation editor that displays reference sequence, annotation, multiple alignme...files can be loaded.This project has moved to GitHub: https://github.com/GenomeV...2012 days ago