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snakemake-minimal
|
public |
A popular workflow management system aiming at full in-silico reproducibility.
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2025-03-21 |
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hmftools-virus-interpreter
|
public |
Post-process VIRUSBreakend summary results.
|
2025-03-18 |
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gtotree
|
public |
GToTree is a user-friendly workflow for phylogenomics.
|
2025-03-18 |
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snakedeploy
|
public |
Helper for deploying published Snakemake pipelines.
|
2025-03-17 |
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perl-list-moreutils-xs
|
public |
Provide the stuff missing in List::Util in XS
|
2025-03-12 |
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busco
|
public |
Assessment of assembly completeness using Universal Single Copy Orthologs.
|
2025-03-07 |
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ngscheckmate
|
public |
Software package for identifying next generation sequencing (NGS) data files from the same individual.
|
2025-03-04 |
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raptor
|
public |
Raptor: A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences
|
2025-02-27 |
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bracken
|
public |
Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.
|
2025-02-26 |
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pbmm2
|
public |
A minimap2 frontend for PacBio native data formats
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2025-02-26 |
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trinity
|
public |
Trinity assembles transcript sequences from Illumina RNA-Seq data.
|
2025-02-24 |
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freebayes
|
public |
Bayesian haplotype-based polymorphism discovery and genotyping.
|
2025-02-24 |
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bioconductor-mzr
|
public |
parser for netCDF, mzXML and mzML and mzIdentML files (mass spectrometry data)
|
2025-02-06 |
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bioconductor-rhdf5lib
|
public |
hdf5 library as an R package
|
2025-02-06 |
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bioconductor-genomicranges
|
public |
Representation and manipulation of genomic intervals
|
2025-02-06 |
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perl-params-validate
|
public |
Validate method/function parameters
|
2025-02-05 |
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perl-datetime
|
public |
A date and time object for Perl.
|
2025-02-05 |
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perl-gd
|
public |
Perl interface to the gd2 graphics library
|
2025-02-03 |
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perl-html-parser
|
public |
HTML parser class
|
2025-01-29 |
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bioconductor-biocgenerics
|
public |
S4 generic functions used in Bioconductor
|
2025-01-29 |
|
bioconductor-genomeinfodb
|
public |
Utilities for manipulating chromosome names, including modifying them to follow a particular naming style
|
2025-01-29 |
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bioconductor-iranges
|
public |
Foundation of integer range manipulation in Bioconductor
|
2025-01-29 |
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bioconductor-xvector
|
public |
Foundation of external vector representation and manipulation in Bioconductor
|
2025-01-29 |
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bioconductor-s4vectors
|
public |
Foundation of vector-like and list-like containers in Bioconductor
|
2025-01-29 |
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deeptools
|
public |
A set of user-friendly tools for normalization and visualzation of deep-sequencing data
|
2025-01-20 |
|
r-spacexr
|
public |
Cell type identification and cell type-specific differential expression in spatial transcriptomics
|
2025-01-09 |
|
stringtie
|
public |
StringTie employs efficient algorithms for transcript structure recovery and abundance estimation from bulk RNA-Seq reads aligned to a reference genome.
|
2025-01-07 |
|
bioconductor-data-packages
|
public |
A package to enable downloading and installation of Bioconductor data packages
|
2025-01-05 |
|
bioconductor-hdf5array
|
public |
HDF5 datasets as array-like objects in R
|
2024-12-31 |
|
bioconductor-rhdf5
|
public |
R Interface to HDF5
|
2024-12-30 |
|
bioconductor-rtracklayer
|
public |
R interface to genome annotation files and the UCSC genome browser
|
2024-12-27 |
|
bioconductor-deseq2
|
public |
Differential gene expression analysis based on the negative binomial distribution
|
2024-12-27 |
|
bioconductor-dexseq
|
public |
Inference of differential exon usage in RNA-Seq
|
2024-12-25 |
|
r-sceasy
|
public |
A package providing functions to convert between different single-cell data formats.
|
2024-12-25 |
|
htseq
|
public |
HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
|
2024-12-19 |
|
umi_tools
|
public |
Tools for dealing with Unique Molecular Identifiers (UMIs) / Random Molecular Tags (RMTs).
|
2024-12-19 |
|
lofreq
|
public |
A fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data
|
2024-12-17 |
|
bioconductor-genomeinfodbdata
|
public |
Species and taxonomy ID look up tables used by GenomeInfoDb
|
2024-12-17 |
|
perl-sub-attribute
|
public |
Reliable subroutine attribute handlers
|
2024-12-16 |
|
trnascan-se
|
public |
tRNA detection in large-scale genomic sequences
|
2024-12-16 |
|
bcftools
|
public |
BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF will work in all situations. Un-indexed VCF and BCF and streams will work in most, but not all situations.
|
2024-12-15 |
|
perl-class-xsaccessor
|
public |
Generate fast XS accessors without runtime compilation
|
2024-12-15 |
|
libmaus2
|
public |
Collection of data structures and algorithms for NGS data.
|
2024-12-14 |
|
perl-indirect
|
public |
Lexically warn about using the indirect method call syntax.
|
2024-12-14 |
|
htslib
|
public |
C library for high-throughput sequencing data formats.
|
2024-12-14 |
|
perl-time-hires
|
public |
High resolution alarm, sleep, gettimeofday, interval timers
|
2024-12-14 |
|
mummer
|
public |
MUMmer is a system for rapidly aligning entire genomes
|
2024-12-13 |
|
meryl
|
public |
No Summary
|
2024-12-13 |
|
pizzly
|
public |
Fast fusion detection using kallisto
|
2024-12-13 |
|
perl-unicode-utf8
|
public |
Encoding and decoding of UTF-8 encoding form
|
2024-12-13 |
