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bioconductor-bgeedb
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public |
Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities Enrichment Analysis tool for UBERON ontology
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2026-03-13 |
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bioconductor-omnipathr
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public |
OmniPath web service client and more
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2026-02-09 |
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funannotate
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public |
funannotate: eukaryotic genome annotation pipeline
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2025-03-25 |
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antismash
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public |
antiSMASH - the antibiotics and Secondary Metabolite Analysis SHell
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2025-03-25 |
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libopenms
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public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
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2025-03-25 |
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openms-thirdparty
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public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
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2025-03-25 |
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pyopenms
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public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
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2025-03-25 |
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lofreq
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public |
A fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data
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2025-03-25 |
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cellprofiler
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public |
CellProfiler is free, open-source software for quantitative analysis of biological images
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2025-03-25 |
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ambertools
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public |
AmberTools is a set of programs for biomolecular simulation and analysis
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2025-03-25 |
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csem
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public |
The Community Earth System Model (CESM) is a coupled climate model for simulating Earth’s climate system
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2025-03-25 |
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dimspy
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public |
Python package for data processing of direct-infusion mass spectrometry-based metabolomics and lipidomics data
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2025-03-25 |
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unicycler
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public |
No Summary
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2025-03-25 |
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pythonnet
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public |
No Summary
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2025-03-25 |
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openms
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public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
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2025-03-25 |
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nucleosome_prediction
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public |
No Summary
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2025-03-25 |
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python-moff
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public |
A modest Feature Finder (moFF) to extract MS1 intensities from Thermo raw file
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2025-03-25 |
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moff
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public |
A modest Feature Finder (moFF) to extract MS1 intensities from Thermo raw file
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2025-03-25 |
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bioconductor-genomicfeatures
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public |
A set of tools and methods for making and manipulating transcript centric annotations. With these tools the user can easily download the genomic locations of the transcripts, exons and cds of a given organism, from either the UCSC Genome Browser or a BioMart database (more sources will be supported in the future). This information is then stored in a local database that keeps track of the relationship between transcripts, exons, cds and genes. Flexible methods are provided for extracting the desired features in a convenient format.
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2025-03-25 |
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bioconductor-biostrings
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public |
Memory efficient string containers, string matching algorithms, and other utilities, for fast manipulation of large biological sequences or sets of sequences.
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2025-03-25 |
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bioconductor-tximport
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public |
Imports transcript-level abundance, estimated counts and transcript lengths, and summarizes into matrices for use with downstream gene-level analysis packages. Average transcript length, weighted by sample-specific transcript abundance estimates, is provided as a matrix which can be used as an offset for different expression of gene-level counts.
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2025-03-25 |
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r-rcpparmadillo
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public |
'Armadillo' is a templated C++ linear algebra library (by Conrad Sanderson) that aims towards a good balance between speed and ease of use. Integer, floating point and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the header files from the templated 'Armadillo' library. Thus users do not need to install 'Armadillo' itself in order to use 'RcppArmadillo'. 'Armadillo' is licensed under the MPL 2.0, while 'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
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2025-03-25 |
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bioconductor-cardinal
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public |
Implements statistical & computational tools for analyzing mass spectrometry imaging datasets, including methods for efficient pre-processing, spatial segmentation, and classification.
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2025-03-25 |
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bioconductor-xvector
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public |
Memory efficient S4 classes for storing sequences "externally" (behind an R external pointer, or on disk).
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2025-03-25 |
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bioconductor-summarizedexperiment
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public |
The SummarizedExperiment container contains one or more assays, each represented by a matrix-like object of numeric or other mode. The rows typically represent genomic ranges of interest and the columns represent samples.
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2025-03-25 |
