SiLiX: implements an ultra-efficient algorithm for the clustering of homologous sequences
The software package SiLiX implements an ultra-efficient algorithm for the clustering of homologous sequences, based on single transitive...int Sets Data Structure, allows the computation of sequence families with low time a...2082 days ago
Purge Haplotigs: Pipeline to help with curating heterozygous diploid genome assemblies
Some parts of a genome may have a very high degree of heterozygosity. This causes contigs for both haplotypes of that part of the genome t...2077 days ago
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)2076 days ago
Biotite: A general framework for computational biology
The package is open source and freely available...p;Biotite consists of four sub packages: sequence, structure, databases, and application. The sequence and structure ...on. This package focuses on working with sequence and structure data and suppor...2076 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 s...2074 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 an...caffolding pipeline, called ALLHIC, specifically tailored to the polyploid genomes....2074 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.2073 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 a...2072 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-w...2066 days ago
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