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downpore
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public |
Suite of tools for use in genome assembly and consensus.
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2023-06-16 |
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msaboot
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public |
Generate bootstrapping replicates for multiple sequence alignment data.
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2023-06-16 |
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kmerinshort
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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
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public |
conditional reciprocal best hits with LAST
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2023-06-16 |
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rnasketch
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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
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public |
Perl extension for Consistent Signal Handling
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2023-06-16 |
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rnablueprint
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public |
The RNAblueprint library solves the problem of uniformly sampling RNA/DNA sequences compatible to multiple structural constraints and sequence constraints.
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2023-06-16 |
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pybamtools
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public |
Tools for working on BAM data
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2023-06-16 |
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metacherchant
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public |
genomic environment analysis tool
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2023-06-16 |
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cistrome-ceas
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public |
Cistrome-CEAS -- Cis-regulatory Element Annotation System
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2023-06-16 |
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nvc
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public |
The Naive Variant Caller
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2023-06-16 |
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cas-offinder
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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).
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2023-06-16 |
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soapcoverage
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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.
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2023-06-16 |
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pybamparser
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public |
Tools for parsing BAM data
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2023-06-16 |
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pal_finder
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public |
Find microsatellite repeat elements from sequencing reads and design PCR primers to amplify them
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2023-06-16 |
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pirs
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public |
pIRS is a program for simulating Illumina PE reads.
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2023-06-16 |
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soapaligner
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public |
SOAPaligner/soap2 is an updated version of SOAP software for short oligonucleotide alignment.
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2023-06-16 |
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r-asics
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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 |
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treekin
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public |
Compute folding dynamics on coarse grained version of an energy landscape by numeric integration of a Markov process
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2023-06-16 |
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perl-moosex-clone
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public |
Fine-grained cloning support for Moose objects.
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2023-06-16 |
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bioconductor-copywriter
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public |
Copy number information from targeted sequencing using off-target reads
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2023-06-16 |
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bioconductor-biosvd
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public |
Package for high-throughput data processing, outlier detection, noise removal and dynamic modeling
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2023-06-16 |
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perl-file-remove
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public |
Remove files and directories
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2023-06-16 |
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bioconductor-browservizdemo
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public |
A BrowserViz subclassing example, xy plotting in the browser using d3.
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2023-06-16 |
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perl-filedirutil
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public |
A Moose Role for basic File IO
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2023-06-16 |
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perl-ppi
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public |
Parse, Analyze and Manipulate Perl (without perl)
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2023-06-16 |
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perl-tie-refhash-weak
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public |
A Tie::RefHash subclass with weakened references in the keys.
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2023-06-16 |
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perl-tie-refhash
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public |
use references as hash keys
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2023-06-16 |
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bioconductor-doqtl
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public |
DOQTL is a quantitative trait locus (QTL) mapping pipeline designed for Diversity Outbred mice and other multi-parent outbred populations. The package reads in data from genotyping arrays and perform haplotype reconstruction using a hidden Markov model (HMM). The haplotype probabilities from the HMM are then used to perform linkage mapping. When founder sequences are available, DOQTL can use the haplotype reconstructions to impute the founder sequences onto DO genomes and perform association mapping.
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2023-06-16 |
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bioconductor-edda
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public |
Experimental Design in Differential Abundance analysis
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2023-06-16 |
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perl-params-coerce
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public |
Allows your classes to do coercion of parameters
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2023-06-16 |
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perl-hook-lexwrap
|
public |
Lexically scoped subroutine wrappers
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2023-06-16 |
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perl-tie-toobject
|
public |
Tie to an existing object.
|
2023-06-16 |
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perl-module-extract-use
|
public |
Pull out the modules a module explicitly uses
|
2023-06-16 |
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perl-test-object
|
public |
Thoroughly testing objects via registered handlers
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2023-06-16 |
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perl-mime-base64
|
public |
The RFC 2045 encodings; base64 and quoted-printable
|
2023-06-16 |
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perl-data-visitor
|
public |
Visitor style traversal of Perl data structures
|
2023-06-16 |
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perl-file-share
|
public |
Extend File::ShareDir to Local Libraries
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2023-06-16 |
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perl-ipc-cmd
|
public |
A cross platform way of running (interactive) commandline programs.
|
2023-06-16 |
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ncfp
|
public |
A program/module to find nt sequences that code for aa sequences
|
2023-06-16 |
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perl-test-file-contents
|
public |
Test routines for examining the contents of files
|
2023-06-16 |
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perl-test-prereq
|
public |
check if Makefile.PL has the right pre-requisites
|
2023-06-16 |
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perl-hash-util-fieldhash-compat
|
public |
Use Hash::Util::FieldHash or ties, depending on availability
|
2023-06-16 |
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bis-snp
|
public |
Bisulfite-seq/NOMe-seq SNPs & cytosine methylation caller
|
2023-06-16 |
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perl-test-subcalls
|
public |
Track the number of times subs are called
|
2023-06-16 |
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mvp
|
public |
detect creation/destruction of sequence motifs as a result of mutations
|
2023-06-16 |
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bioconductor-tdaracne
|
public |
Network reverse engineering from time course data.
|
2023-06-16 |
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funnel
|
public |
Funnel is a toolkit for distributed task execution via a simple, standard API
|
2023-06-16 |
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refseq_masher
|
public |
refseq_masher finds what NCBI RefSeq genomes match or are contained within your sequence data using Mash
|
2023-06-16 |
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tinysink
|
public |
Synchronise Nanopore reads with a server.
|
2023-06-16 |
