AIRVF: a filtering toolbox for precise variant calling in Ion Torrent sequencing
AIRVF that works on flowgram, raw and mapped reads and called variants to reduce artifact-d...calls. Tests on sequencing data of standard reference material showed...ned to conventional public pipelines and ∼48% to the in-house comm...vailable at https://sourceforge.net...2354 days ago
Dot, an interactive viewer for genome-genome comparison
Dot, an interactive dot plot viewer that allows genome scientis...er to evaluate new assemblies and perform exploratory comparative genomics. Dot...mblies. A quick script called DotPrep.py converts the delta fil...ents in certain regions on demand. Dot, an interactive viewer...2331 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
EvidentialGene is a genome informatics project, "Evidence Direct...accurate gene sets for animals and plants, developed by Don Gilb...of classical gene prediction, and more recent gene assembly (de...ted species protein sequences, and any other, to annotate and sc...mbly.html https://sourceforge.net...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 on the non recombining...the same sequencing data can be used for the assembly and...2195 days ago
D-GENIES: A tool for Dotplot large Genomes in an Interactive, Efficient and Simple way
D-GENIES – for Dotplot large Genomes in an Interactive, Efficient and Simp...genomes. It supports large genome and you can interact with the dot plot to improve the visualisa...omes. Then, the PAF file is parsed and plotted into an interactive p...D-Genies also allows to display dot...2183 days ago
fragScaff: Genome Assembly with Contiguity Preserving Transposition
Contiguity preserving transposition and sequencing (CPT-seq) is an entirely in vitro means...of 9216 indexed pools, each of which contains thousands of sparsely sequenced long f...ng source code, is available at:https://sourceforge.net...2211 days ago
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MimicrEE2: Genome-wide forward simulations of Evolve and Resequencing studies
MimicrEE2, a multi-threaded Java program for genome-wide forward simulations of evolvi...of model organism frequently used in E&R studies and offers a wide range of differ...under the GPLv3 license at https://sourceforge.net...2074 days ago
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