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perl-cache-cache
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public |
extends Cache::SizeAwareMemoryCache
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2023-06-16 |
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pblaa
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public |
PacBio tool to deconvolute mixtures of alleles and loci into phased consensus sequences.
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2023-06-16 |
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r-rgbif
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public |
A programmatic interface to the Web Service methods provided by the Global Biodiversity Information Facility ('GBIF'; <https://www.gbif.org/developer/summary>). 'GBIF' is a database of species occurrence records from sources all over the globe. 'rgbif' includes functions for searching for taxonomic names, retrieving information on data providers, getting species occurrence records, getting counts of occurrence records, and using the 'GBIF' tile map service to make 'rasters' summarizing huge amounts of data.
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2023-06-16 |
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r-phylosignal
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public |
A collection of tools to explore the phylogenetic signal in univariate and multivariate data. The package provides functions to plot traits data against a phylogenetic tree, different measures and tests for the phylogenetic signal, methods to describe where the signal is located and a phylogenetic clustering method.
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2023-06-16 |
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krocus
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public |
krocus performs multi-locus sequence typing from uncorrected long reads.
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2023-06-16 |
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biopet-validateannotation
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public |
ValidateAnnotationvalidates whether an annotation file is correct.
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2023-06-16 |
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sourcetracker
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public |
Python implementation of the SourceTracker R package.
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2023-06-16 |
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advntr
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public |
A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data
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2023-06-16 |
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perl-package-stash-xs
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public |
faster and more correct implementation of the Package::Stash API
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2023-06-16 |
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plascope
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public |
PlaScope is a targeted approach to assess the plasmidome of bacteria.
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2023-06-16 |
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perl-json-pp
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public |
JSON::XS compatible pure-Perl module.
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2023-06-16 |
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perl-cpan-meta-yaml
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public |
Read and write a subset of YAML for CPAN Meta files
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2023-06-16 |
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ssake
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public |
SSAKE is a genomics application for de novo assembly of millions of very short DNA sequences.
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2023-06-16 |
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perl-class-singleton
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public |
Base class for creating singleton objects
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2023-06-16 |
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bamclipper
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public |
Remove primer sequence from BAM alignments by soft-clipping.
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2023-06-16 |
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perl-version
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public |
Structured version objects
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2023-06-16 |
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arboreto
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public |
Scalable gene regulatory network inference using tree-based ensemble regressors
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2023-06-16 |
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mauve
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public |
Mauve is a system for constructing multiple genome alignments in the presence of large-scale evolutionary events such as rearrangement and inversion
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2023-06-16 |
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barriers
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public |
Compute local minima and energy barriers of a landscape.
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2023-06-16 |
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perl-text-abbrev
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public |
abbrev - create an abbreviation table from a list
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2023-06-16 |
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phyluce
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public |
Software for UCE (and general) phylogenomics.
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2023-06-16 |
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perl-storable
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public |
persistence for Perl data structures
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2023-06-16 |
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sshmm
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public |
ssHMM is an RNA motif finder that recovers sequence-structure motifs from RNA-binding protein data, such as CLIP-Seq data.
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2023-06-16 |
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tardis
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public |
Pre-processor for bioinformatics cluster job submission
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2023-06-16 |
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gbsx
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public |
Toolkit for experimental design and demultiplexing genotyping by sequencing experiments
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2023-06-16 |
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icount
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public |
Computational pipeline for analysis of iCLIP data
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2023-06-16 |
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biopet-basecounter
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public |
BaseCounter counts the bases from genes and transcripts and outputs information on the counts in exonic and intronic regions as well as information on the counts on the sense and antisense strands.
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2023-06-16 |
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mauvealigner
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public |
The mauveAligner and progressiveMauve command-line tools for generating multiple genome alignments in the presence of large-scale evolutionary events
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2023-06-16 |
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phenix
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public |
Public Health England SNP calling pipeline
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2023-06-16 |
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pathwaymatcher
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public |
PathwayMatcher is a software tool writen in Java to search for pathways related to a list of proteins in Reactome.
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2023-06-16 |
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mirge
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public |
comprehensive analysis of miRNA sequencing data
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2023-06-16 |
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libmems
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public |
libMems is a freely available software development library to support DNA string matching and comparative genomics.
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2023-06-16 |
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biopet-seqstat
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public |
SeqStat is a package that contains tools to generate stats from a FastQ file, merge those stats for multiple samples, and validate the generated stats files.
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2023-06-16 |
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metaquant
|
public |
Quantitative microbiome analysis
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2023-06-16 |
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perl-string-random
|
public |
Perl module to generate random strings based on a pattern
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2023-06-16 |
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r-ngsplot
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public |
Quick mining and visualization of NGS data by integrating genomic databases
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2023-06-16 |
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ngsplotdb-ngsplotdb-hg19
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public |
HG19 genome database for NGSplot
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2023-06-16 |
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atactk
|
public |
A toolkit for working with ATAC-seq data.
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2023-06-16 |
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r-ngsplotdb-hg19
|
public |
HG19 genome database for NGSplot
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2023-06-16 |
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fastq-anonymous
|
public |
Change the sequence of a fastq file to enable sharing of confidential information, for troubleshooting of tools.
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2023-06-16 |
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perl-file-util
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public |
Easy, versatile, portable file handling
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2023-06-16 |
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r-ngsplotdb-mm10
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public |
MM10 genome database for NGSplot
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2023-06-16 |
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biopet-fastqsplitter
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public |
This tool divides a fastq file into smaller fastq files, based on the number of output files specified.
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2023-06-16 |
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deepvariant
|
public |
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data
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2023-06-16 |
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irida-sistr-results
|
public |
Exports SISTR results available through IRIDA into a single report.
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2023-06-16 |
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r-ngsplotdb-hg38
|
public |
HG19 genome database for NGSplot
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2023-06-16 |
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pmdtools
|
public |
Compute postmortem damage patterns and decontaminate ancient genomes
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2023-06-16 |
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fasta-splitter
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public |
Divides a large FASTA file into a set of smaller, approximately equally sized files
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2023-06-16 |
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pyvolve
|
public |
Pyvolve is an open-source Python module for simulating sequences along a phylogenetic tree according to continuous-time Markov models of sequence evolution. Please cite: Spielman, S.J., and Wilke, C.O. (2015). Pyvolve: A Flexible Python Module for Simulating Sequences along Phylogenies. PLOS ONE 10, e0139047.
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2023-06-16 |
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genomestrip
|
public |
Genome STRiP (Genome STRucture In Populations) is a suite of tools for discovery and genotyping of structural variation using whole-genome sequencing data
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2023-06-16 |
