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r-rnexml
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public |
Provides access to phyloinformatic data in 'NeXML' format. The package should add new functionality to R such as the possibility to manipulate 'NeXML' objects in more various and refined way and compatibility with 'ape' objects.
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2023-06-16 |
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riborex
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public |
Riborex is a R package for identification of differential translation from Ribo-seq data.
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2023-06-16 |
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kopt
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public |
Keras-hyperopt (kopt); Hyper-parameter tuning for Keras using hyperopt.
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2023-06-16 |
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octopus
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public |
Octopus is a mapping-based variant caller that implements several calling models within a unified haplotype-aware framework.
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2023-06-16 |
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bazam
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public |
A tool to extract paired reads in FASTQ format from coordinate sorted BAM files
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2023-06-16 |
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lexmapr
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public |
A Lexicon and Rule-Based Tool for Translating Short Biomedical Specimen Descriptions into Semantic Web Ontology Terms
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2023-06-16 |
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perl-bio-automatedannotation
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public |
Automated annotation of assemblies
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2023-06-16 |
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tinyfasta
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public |
Tiny Python package, with no external dependencies, for parsing FASTA sequence files.
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2023-06-16 |
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perl-gtdbtk
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public |
Perl script and dependent library files required for GTDB-Tk.
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2023-06-16 |
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kinsimriboswitch
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public |
Pipeline for the simulation of RNA--ligand interaction kinetics as
outlined in Kuehnl et al. 2017, https://doi.org/10.1186/s12859-017-1823-5
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2023-06-16 |
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reparation_blast
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public |
A pipeline that detects novel open reading frames with ribseq data for bacteria.
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2023-06-16 |
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r-popgenome
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public |
Provides efficient tools for population genomics data analysis, able to process individual loci, large sets of loci, or whole genomes. PopGenome <DOI:10.1093/molbev/msu136> not only implements a wide range of population genetics statistics, but also facilitates the easy implementation of new algorithms by other researchers. PopGenome is optimized for speed via the seamless integration of C code.
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2023-06-16 |
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slamdunk
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public |
Slamdunk is a software tool for SLAMseq data analysis.
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2023-06-16 |
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biolib
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public |
Package for common tasks in bioinformatics.
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2023-06-16 |
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revtrans
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public |
revtrans - performs a reverse translation of a peptide alignment.
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2023-06-16 |
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r-blockfest
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public |
An R implementation of an extension of the 'BayeScan' software (Foll, 2008) <DOI:10.1534/genetics.108.092221> for codominant markers, adding the option to group individual SNPs into pre-defined blocks. A typical application of this new approach is the identification of genomic regions, genes, or gene sets containing one or more SNPs that evolved under directional selection.
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2023-06-16 |
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flowcraft
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public |
A Nextflow pipeline assembler for genomics. Pick your modules. Assemble them. Run the pipeline.
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2023-06-16 |
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duphold
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public |
SV callers like lumpy look at split-reads and pair distances to find structural variants. This tool is a fast way to add depth information to those calls.
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2023-06-16 |
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gatktool
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public |
Functions and classes used to extend a GATK tool with Python
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2023-06-16 |
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r-metstat
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public |
A diverse collection of metabolomics related statistical tools.
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2023-06-16 |
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admixture
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public |
ADMIXTURE is a software tool for maximum likelihood estimation of individual ancestries from multilocus SNP genotype datasets.
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2023-06-16 |
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perl-autodie
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public |
Replace functions with ones that succeed or die with lexical scope
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2023-06-16 |
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bufet
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public |
Tool that performs the unbiased miRNA functional enrichment analysis (Bleazard et al.) requiring significantly reduced excution times (less than 10 minutes for 1 million iterations).
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2023-06-16 |
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smeg
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public |
Strain-level Metagenomic Estimation of Growth rate (SMEG) measures growth rates of microbial strains from complex metagenomic dataset
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2023-06-16 |
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dadi
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public |
Fit population genetic models using diffusion approximations to the allele frequency spectrum
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2023-06-16 |
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rpf-count-cds
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public |
A python script for counting RPF reads map to CDS region.
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2023-06-16 |
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scvi
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public |
Single-cell Variational Inference
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2023-06-16 |
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perl-snap
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public |
SNAP calculates pairwise synonymous and nonsynonymous distances according to the Nei and Gojobori method for an alignment in table format.
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2023-06-16 |
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phame
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public |
A tool to derive SNP matrices and phylogenetic tree from raw reads, contigs, and full genomes.
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2023-06-16 |
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delegation
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public |
Simple implementation of the delegate pattern.
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2023-06-16 |
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mccortex
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public |
De novo genome assembly and multisample variant calling
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2023-06-16 |
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upload-test-b111de38
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public |
No Summary
|
2023-06-16 |
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libarbdb
|
public |
ARB 6 Sequence Analysis Suite
|
2023-06-16 |
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genclust
|
public |
A genetic algorithm for clustering gene expression data.
|
2023-06-16 |
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arb-bio-tools
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public |
ARB 6 Sequence Analysis Suite
|
2023-06-16 |
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arb-bio-devel
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public |
ARB 6 Sequence Analysis Suite
|
2023-06-16 |
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python-rnacentral
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public |
This tool exploits the RNAcentral public APIs to automatically retrieve sequences (converted to the FASTA format) and the related metadata, starting with one or a list of RNAcentral IDs
|
2023-06-16 |
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smcounter2
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public |
smCounter2: an accurate low-frequency variant caller for targeted sequencing data with unique molecular identifiers
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2023-06-16 |
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ghost-tree
|
public |
ghost-tree is a bioinformatics tool that combines sequence data from two
genetic marker databases into one phylogenetic tree that can be used for
diversity analyses.
|
2023-06-16 |
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shannon
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public |
A program for assembling transcripts from RNA-Seq data.
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2023-06-16 |
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perl-math-random-mt-auto
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public |
Auto-seeded Mersenne Twister PRNGs
|
2023-06-16 |
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showit
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public |
simple and sensible display of images in python
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2023-06-16 |
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perl-business-isbn
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public |
work with International Standard Book Numbers
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2023-06-16 |
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perl-mac-systemdirectory
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public |
Locate Mac OS X Standard System Directories
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2023-06-16 |
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perl-sub-quote
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public |
Efficient generation of subroutines via string eval
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2023-06-16 |
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perl-sys-info
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public |
Fetch information from the host system
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2023-06-16 |
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perl-sys-info-driver-osx
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public |
OSX driver for Sys::Info
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2023-06-16 |
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perl-devel-assert
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public |
assertions for Perl >= 5.14
|
2023-06-16 |
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perl-sys-info-base
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public |
Base class for Sys::Info
|
2023-06-16 |
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perl-carp-clan
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public |
Report errors from perspective of caller of a "clan" of modules
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2023-06-16 |
