52 packages tagged with “bioinformatics”
Open source bioinformatics and computational biology toolbox written in F#.
The common database reader includes: NCBI genbank reader NCBI gff/PTT feature sites document reader KEGG DBGET/LinkDB/BriteText/SSDB rest API MetaCyc database parser Common Fasta sequence database I/O DOOR database reader etc.
ISA compliant experimental metadata toolkit in F#. This project is meant as an easy means to open, manipulate and save ISA (Investigation,Study,Assay) metadata files in the dotnet environment.
Statistical functions with a clear biological focus such as Gene Set Enrichment Analysis (GSEA)
Proyecto experimental para el estudio de biosecuencias en el grupo DESTINO
ARC helper functions for filesystem management.
Data visualization for bioinformatic purposes
This library provides the NCBI blast+ output parser and some data analysis API, like SBH, BBH, venn diagram analysis. This package also provides a batch schedule extension for the large scale localblast alignment parallel task in multiple localblast process. project source code can be download from github: https://github.com/SMRUCC/ncbi-localblast
ARC helper functions for Common workflow language.
ARC helper functions for contracts management.
Library for management of Annotated Research Contexts (ARCs) using an in-memory representation and runtime agnostic contract systems.
BioFSharp.IO contains read/write functions for a diverse set of biological file formats such as Fasta, FastQ, GeneBank or GFF, as well as helper function for searching on or transforming the input data
Excel File IO methods for ISA compliant experimental metadata toolkit in F#. The underlying datamodel can be directly read from and written to ISA-Json and ISA-Excel (ISATab format) files.
Implementations of compression schemes for numeric data from mass spectrometers. Inofficial nuget package
imlp predicts iMTS-L propensity profiles of protein sequences of interest
A data model of the ARC concept via it's RO Crate profile
Fable compliant release for the ISA compliant experimental metadata toolkit in F#. Additionally to the compiled library, it is shipped with the uncompiled code.
ARC and ISA compliant experimental metadata toolkit in F#. This project is meant as an easy means to open, manipulate and save ISA (Investigation,Study,Assay) metadata files in the dotnet environment.
Functional graph-library written in F#
FastaHelperLib provides functionality for parsing & otherwise handling FASTA files.
Modern Ribosoft algorithm support library for ribozyme design and bioinformatics calculations. Built with C++23, includes ViennaRNA and Melting temperature algorithms. Optimized for .NET 8+ with native AOT support.
ARC and ISA json compliant parser for experimental metadata toolkit in F#. This project is meant as an easy means to open, manipulate and save ISA (Investigation,Study,Assay) metadata files in isa-json format.
Bioinformatics in F#
Visualization extensions for ISA compliant experimental metadata toolkit in F#. This project helps visualize the experimental workflow described in the experiment metadata.
Make your workflow ML ready with BioFSharp.ML. Currently contains helper functionf for CNTK and a pre-trained model we used in our publication about predicting peptide observability.
ARC helper functions for Parsing YAML files.
TMEA (Thermodynamically Motivated Enrichment Analysis) is a thermodynamically motivated approach to gene set enrichment analysis