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gblocks
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public |
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis.
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2023-06-16 |
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perl-perl-ostype
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public |
Map Perl operating system names to generic types
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2023-06-16 |
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fseq
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public |
F-Seq: A feature density estimator for high-throughput sequence tags
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2023-06-16 |
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libdeflate
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public |
libdeflate is a library for fast, whole-buffer DEFLATE-based compression and decompression.
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2023-06-16 |
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perl-file-tee
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public |
replicate data sent to a Perl stream
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2023-06-16 |
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perl-bio-mlst-check
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public |
Multilocus sequence type checking using blast
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2023-06-16 |
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perl-super
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public |
control superclass method dispatch
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2023-06-16 |
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sloika
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public |
Sloika is Oxford Nanopore Technologies' software for training neural network models for base calling
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2023-06-16 |
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perl-file-touch
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public |
update file access and modification times, optionally creating files if needed
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2023-06-16 |
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perl-test-mockmodule
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public |
Override subroutines in a module for unit testing
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2023-06-16 |
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smoove
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public |
structural variant calling and genotyping with existing tools, but, smoothly
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2023-06-16 |
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mamotif
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public |
An integrative toolkit for detecting cell type-specific regulators
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2023-06-16 |
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drax
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public |
A pipeline for Detecting Resistome Associated taXa.
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2023-06-16 |
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chromosomer
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public |
A reference-assisted assembly tool for producing draft chromosome sequences.
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2023-06-16 |
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protk
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public |
protk (Proteomics toolkit)
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2023-06-16 |
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mikado
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public |
A Python3 annotation program to select the best gene model in each locus
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2023-06-16 |
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bioformats
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public |
A collection of Python classes to handle bioinformatics data.
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2023-06-16 |
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suppa
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public |
A tool to study splicing across multiple conditions at high speed and accuracy.
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2023-06-16 |
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tpp
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public |
The Trans-Proteomic Pipeline (TPP) is a collection of integrated tools for MS/MS proteomics developed at the Seattle Proteome Center. The Bioconda package includes the command-line versions of the TPP toolset. These programs include tools for validation (PeptideProphet, iProphet, ProteinProphet, Mayu) and quantification (XPRESS, ASAPRatio, Libra) as well as a number of parsers and converters (Out2XML, Mascot2XML, Tandem2XML, etc).
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2023-06-16 |
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perl-findbin-libs
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public |
locate and a 'use lib' or export directories based on $FindBin::Bin.
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2023-06-16 |
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perl-module-fromperlver
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public |
install modules compatible with the running perl.
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2023-06-16 |
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k-slam
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public |
k-SLAM is a program for alignment based metagenomic analysis of large sets of high-throughput sequence data.
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2023-06-16 |
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adapterremovalfixprefix
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public |
Fixes adapter removal prefixes to make sure no clashing read names are in the output.
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2023-06-16 |
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circularmapper
|
public |
A method to improve mappings on circular genomes, using the BWA mapper.
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2023-06-16 |
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cistrome_beta
|
public |
Binding and Expression Target Analysis of ChIP-seq TF with differential gene expression
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2023-06-16 |
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marge
|
public |
Model-based Analysis of Regulation of Gene Expression
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2023-06-16 |
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vcf2genome
|
public |
A tool to create a draft genome file out of a GATK VCF file and enabling users to filter the VCF in a single step.
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2023-06-16 |
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pispino
|
public |
PISPINO (PIpits SPIN-Off tools): Bioinformatics toolkits for processing NGS data
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2023-06-16 |
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metagene_annotator
|
public |
MetaGeneAnnotator is a gene-finding program for prokaryote and phage
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2023-06-16 |
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pydnase
|
public |
DNase-seq analysis library
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2023-06-16 |
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snakeparse
|
public |
Making Snakemake workflows into full-fledged command line tools since 1999.
|
2023-06-16 |
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krakenhll
|
public |
KrakenHLL metagenomics classification method with unique k-mer counting for more specific results
|
2023-06-16 |
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downpore
|
public |
Suite of tools for use in genome assembly and consensus.
|
2023-06-16 |
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msaboot
|
public |
Generate bootstrapping replicates for multiple sequence alignment data.
|
2023-06-16 |
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kmerinshort
|
public |
KmerInShort counts kmers from a fasta/fastq file or list of files, and outputs results in a text file. It is limited to short kmers (k<15). It is a part of the FEELnc pipeline (V.Wucher et al.)
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2023-06-16 |
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shmlast
|
public |
conditional reciprocal best hits with LAST
|
2023-06-16 |
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rnasketch
|
public |
RNAsketch Library for designing RNA molecules. Glue between RNAblueprint/RNARedPrint and ViennaRNA, Nupack, Hotknots, pKiss.
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2023-06-16 |
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perl-sys-sigaction
|
public |
Perl extension for Consistent Signal Handling
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2023-06-16 |
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rnablueprint
|
public |
The RNAblueprint library solves the problem of uniformly sampling RNA/DNA sequences compatible to multiple structural constraints and sequence constraints.
|
2023-06-16 |
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pybamtools
|
public |
Tools for working on BAM data
|
2023-06-16 |
|
metacherchant
|
public |
genomic environment analysis tool
|
2023-06-16 |
|
cistrome-ceas
|
public |
Cistrome-CEAS -- Cis-regulatory Element Annotation System
|
2023-06-16 |
|
nvc
|
public |
The Naive Variant Caller
|
2023-06-16 |
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cas-offinder
|
public |
Cas-OFFinder is OpenCL based, ultrafast and versatile program that searches for potential off-target sites of CRISPR/Cas-derived RNA-guided endonucleases (RGEN).
|
2023-06-16 |
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soapcoverage
|
public |
SOAPcoverarge can calculate sequencing coverage or physical coverage as well as duplication rate and details of specific block for each segments and whole genome by using SOAP, BLAT, BLAST, BlastZ, mum- mer and MAQ aligement results with multi-thread.
|
2023-06-16 |
|
pybamparser
|
public |
Tools for parsing BAM data
|
2023-06-16 |
|
pal_finder
|
public |
Find microsatellite repeat elements from sequencing reads and design PCR primers to amplify them
|
2023-06-16 |
|
pirs
|
public |
pIRS is a program for simulating Illumina PE reads.
|
2023-06-16 |
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soapaligner
|
public |
SOAPaligner/soap2 is an updated version of SOAP software for short oligonucleotide alignment.
|
2023-06-16 |
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r-asics
|
public |
With a set of pure metabolite spectra, ASICS quantifies metabolites concentration in a complex spectrum. The identification of metabolites is performed by fitting a mixture model to the spectra of the library with a sparse penalty. The method and its statistical properties are described in Tardivel et al. (2017) <doi:10.1007/s11306-017-1244-5>.
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2023-06-16 |
