TRITEX sequence assembly pipeline for Triticeae genomes
The pipeline is open-source and hosted in a public Bitbucket repository. TRI...in Himmelbach et al. 2018. Refer to the technical notes of 10X Genomics on how to generate Chromium d...1772 days ago
Seq: A high-performance, Pythonic language for bioinformatics
Seq is a programming language for computational genomics and bioinformatics. With a Python-compatible syntax and a host...features and optimizations, Seq makes writing high-performance genomics software as easy as writing P...1677 days ago
phyloXML: XML for evolutionary biology and comparative genomics
phyloXML (example) is an XML language designed to describe phylogenetic trees (or networks) and associated data. PhyloXML provides elements for commonly u...1662 days ago
LibsDyogen: Libibrary for comparative genomics
Library of usual classes and functions written in python and used in the Dyogen team for comparative genomics applications. Collaborative python library used in the DYOGEN teamfor studying the evolution of gene order in vertebrates. http://www.ibens.ens.fr/?rubrique43&lang=fr1645 days ago
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Π-cyc: A Reference-free SNP Discovery Application using Parallel Graph Search
Reference free SNP search for comparative population genomics: multiple samples run simultanously. **experimental phase, compiles and runs with OpenMPI-1.8.8 with Intel Compiler only Cycle...1611 days ago
mutatrix: a population genome simulator which generates simulated genomes.
genome simulation across a population with zeta-distributed allele frequency, snps, insertions, deletions, and multi-nucleotide polymorphisms More at https://github.com/ekg/mutatrix ./mutatrix -S sample -P test/ -p 2 -n 10 reference.fasta1611 days ago
Nucleus: Python and C++ code for reading and writing genomics data.
Nucleus is a library of Python and C++ code designed to make...it easy to read, write and analyze data in common genomics file formats like SAM and VCF...sorFlow machine learning framework, as anywhere a genomics file is consumed or produced,...1606 days ago
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The Global Alliance for Genomics and Health (GA4GH)
The Global Alliance for Genomics and Health (GA4GH) is a policy-framing and technical standards-setting organization, seeking to enable responsible genomic data sharing within a hum...1600 days ago