Pinned Repositories
BODscore
Scoring method for identified SNPs
cibiv-beamer-template
CIBIV latex beamer template base on mtheme (https://github.com/matze/mtheme)
Cibiv.github.io
CIBIV website
EvoNAPS
EvoNAPS is a database providing input parameter settings for extensive sequence simulations to be used in phylogenetic studies.
gwpcR
Corrects UMI-based NGS data for phantom UMIs and lost molecules using a mechanistic model of UMI-based experiments
IQ-TREE
Efficient phylogenomic software by maximum likelihood
NextGenMap
NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms while still outperforming them in terms of runtime. This allows analysing large scale datasets even with increased SNP rates or higher error rates (e.g. caused by specialized experimental protocols) and avoids biases caused by highly variable regions in the genome.
pyrganoid
Teaser
A tool to benchmark mappers and different parameters within minutes
trumicount
Correctly counting molecules using unique molecular identifiers (UMIs)
CIBIV - Center for Integrative Bioinformatics Vienna's Repositories
Cibiv/IQ-TREE
Efficient phylogenomic software by maximum likelihood
Cibiv/NextGenMap
NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms while still outperforming them in terms of runtime. This allows analysing large scale datasets even with increased SNP rates or higher error rates (e.g. caused by specialized experimental protocols) and avoids biases caused by highly variable regions in the genome.
Cibiv/Teaser
A tool to benchmark mappers and different parameters within minutes
Cibiv/trumicount
Correctly counting molecules using unique molecular identifiers (UMIs)
Cibiv/BODscore
Scoring method for identified SNPs
Cibiv/gwpcR
Corrects UMI-based NGS data for phantom UMIs and lost molecules using a mechanistic model of UMI-based experiments
Cibiv/Cibiv.github.io
CIBIV website
Cibiv/cibiv-beamer-template
CIBIV latex beamer template base on mtheme (https://github.com/matze/mtheme)
Cibiv/EvoNAPS
EvoNAPS is a database providing input parameter settings for extensive sequence simulations to be used in phylogenetic studies.
Cibiv/ModelRevelator
Cibiv/pyrganoid
Cibiv/UMI-tools
Tools for handling Unique Molecular Identifiers in NGS data sets
Cibiv/zone-net
Neural Network predicting if the underlying tree of a given MSA is a Farris- or Felsenstein-like tree
Cibiv/ipoolseq-pipeline
A pipeline for the analysis of iPool-Seq data
Cibiv/PDA
Phylogenetic Diversity Analyzer
Cibiv/bioconda-recipes
Conda recipes for the bioconda channel.
Cibiv/py-remoter
Task queue which keeps tracks of jobs and their exit status
Cibiv/SANjar
Simulates the deterministic and stochastic versions of the SAN model