#98303Bioconductor Matrixqcvis
bioMate-AI/biomate-bioconductor-kb
Data quality assessment is an integral part of preparatory data analysis to ensure sound biological information retrieval.
98,398 skills
All agent skills page 2021 of 2050
Open-source SKILL.md skills for Claude Code, Codex, Cursor, Gemini CLI, GitHub Copilot and other agents, ranked by GitHub stars, adoption and SKILL.md quality. Skills that fail our automated safety check are left out.
#98304Bioconductor Miasim
bioMate-AI/biomate-bioconductor-kb
Microbiome time series simulation with generalized Lotka-Volterra model, Self-Organized Instability (SOI), and other models.
#98305Bioconductor Minfi
bioMate-AI/biomate-bioconductor-kb
Tools to analyze & visualize Illumina Infinium methylation arrays.
#98306Bioconductor Mirtarrnaseq
bioMate-AI/biomate-bioconductor-kb
mirTarRnaSeq R package can be used for interactive mRNA miRNA sequencing statistical analysis.
#98307Bioconductor Mosbi
bioMate-AI/biomate-bioconductor-kb
This package is a implementation of biclustering ensemble method MoSBi (Molecular signature Identification from Biclustering).
#98308Bioconductor Msa2dist
bioMate-AI/biomate-bioconductor-kb
MSA2dist calculates pairwise distances between all sequences of a DNAStringSet or a AAStringSet using a custom score matrix and conducts codon based analysis.
#98309Bioconductor Msbackendmassbank
bioMate-AI/biomate-bioconductor-kb
Mass spectrometry (MS) data backend supporting import and export of MS/MS library spectra from MassBank record files.
#98310Bioconductor Msdatahub
bioMate-AI/biomate-bioconductor-kb
The MsDataHub package uses the ExperimentHub infrastructure to distribute raw mass spectrometry data files, peptide spectrum matches or quantitative data from proteomics and metabolomics experiments.
#98311Bioconductor Msnbase
bioMate-AI/biomate-bioconductor-kb
MSnbase provides infrastructure for manipulation, processing and visualisation of mass spectrometry and proteomics data, ranging from raw to quantitative and annotated data.
#98312Bioconductor Msstatslip
bioMate-AI/biomate-bioconductor-kb
Tools for LiP peptide and protein significance analysis. An agent skill from bioMate-AI/biomate-bioconductor-kb.
#98313Bioconductor Mudata
bioMate-AI/biomate-bioconductor-kb
Save MultiAssayExperiments to h5mu files supported by muon and mudata.
#98314Bioconductor Nanotube
bioMate-AI/biomate-bioconductor-kb
NanoTube includes functions for the processing, quality control, analysis, and visualization of NanoString nCounter data.
#98315Bioconductor Nnsvg
bioMate-AI/biomate-bioconductor-kb
Method for scalable identification of spatially variable genes (SVGs) in spatially-resolved transcriptomics data.
#98316Bioconductor Omicsviewer
bioMate-AI/biomate-bioconductor-kb
omicsViewer visualizes ExpressionSet (or SummarizedExperiment) in an interactive way.
#98317Bioconductor Ompbam
bioMate-AI/biomate-bioconductor-kb
This packages provides C++ header files for developers wishing to create R packages that processes BAM files.
#98318Bioconductor Orfhunter
bioMate-AI/biomate-bioconductor-kb
The ORFhunteR package is a R and C++ library for an automatic determination and annotation of open reading frames (ORF) in a large set of RNA molecules.
#98319Bioconductor Phipdata
bioMate-AI/biomate-bioconductor-kb
PhIPData defines an S4 class for phage-immunoprecipitation sequencing (PhIP-seq) experiments.
#98320Bioconductor Ptairms
bioMate-AI/biomate-bioconductor-kb
This package implements a suite of methods to preprocess data from PTR-TOF-MS instruments (HDF5 format) and generates the 'sample by features' table of peak intensities in addition to the sample and…
#98321Bioconductor Rblast
bioMate-AI/biomate-bioconductor-kb
Seamlessly interfaces the Basic Local Alignment Search Tool (BLAST) to search genetic sequence data bases.
#98322Bioconductor Rgoslin
bioMate-AI/biomate-bioconductor-kb
The R implementation for the Grammar of Succint Lipid Nomenclature parses different short hand notation dialects for lipid names.
#98323Bioconductor Ribodipa
bioMate-AI/biomate-bioconductor-kb
This package performs differential pattern analysis for Ribo-seq data.
#98324Bioconductor Scanmir
bioMate-AI/biomate-bioconductor-kb
A set of tools for working with miRNA affinity models (KdModels), efficiently scanning for miRNA binding sites, and predicting target repression.
#98325Bioconductor Scannotatr
bioMate-AI/biomate-bioconductor-kb
The package comprises a set of pretrained machine learning models to predict basic immune cell types.
#98326Bioconductor Scarray
bioMate-AI/biomate-bioconductor-kb
Provides large-scale single-cell omics data manipulation using Genomic Data Structure (GDS) files.
#98327Bioconductor Scater
bioMate-AI/biomate-bioconductor-kb
A collection of tools for doing various analyses of single-cell RNA-seq gene expression data, with a focus on quality control and visualization.
#98328Bioconductor Sccomp
bioMate-AI/biomate-bioconductor-kb
A robust and outlier-aware method for testing differential tissue composition from single-cell data.
#98329Bioconductor Scdesign3
bioMate-AI/biomate-bioconductor-kb
We present a statistical simulator, scDesign3, to generate realistic single-cell and spatial omics data, including various cell states, experimental designs, and feature modalities, by learning…
#98330Bioconductor Scran
bioMate-AI/biomate-bioconductor-kb
Implements miscellaneous functions for interpretation of single-cell RNA-seq data.
#98331Bioconductor Screclassify
bioMate-AI/biomate-bioconductor-kb
A post hoc cell type classification tool to fine-tune cell type annotations generated by any cell type classification procedure with semi-supervised learning algorithm AdaSampling technique.
#98332Bioconductor Sechm
bioMate-AI/biomate-bioconductor-kb
sechm provides a simple interface between SummarizedExperiment objects and the ComplexHeatmap package.
#98333Bioconductor Sgcp
bioMate-AI/biomate-bioconductor-kb
SGC is a semi-supervised pipeline for gene clustering in gene co-expression networks.
#98334Bioconductor Simbu
bioMate-AI/biomate-bioconductor-kb
SimBu can be used to simulate bulk RNA-seq datasets with known cell type fractions.
#98335Bioconductor Simpleseg
bioMate-AI/biomate-bioconductor-kb
Image segmentation is the process of identifying the borders of individual objects (in this case cells) within an image.
#98336Bioconductor Singlecellexperiment
bioMate-AI/biomate-bioconductor-kb
Defines a S4 class for storing data from single-cell experiments.
#98337Bioconductor Spatialde
bioMate-AI/biomate-bioconductor-kb
SpatialDE is a method to find spatially variable genes (SVG) from spatial transcriptomics data.
#98338Bioconductor Splicewiz
bioMate-AI/biomate-bioconductor-kb
The analysis and visualization of alternative splicing (AS) events from RNA sequencing data remains challenging.
#98339Bioconductor Spotclean
bioMate-AI/biomate-bioconductor-kb
SpotClean is a computational method to adjust for spot swapping in spatial transcriptomics data.
#98340Bioconductor Spotsweeper
bioMate-AI/biomate-bioconductor-kb
Spatially-aware quality control (QC) software for both spot-level and artifact-level QC in spot-based spatial transcripomics, such as 10x Visium.
#98341Bioconductor Standr
bioMate-AI/biomate-bioconductor-kb
standR is an user-friendly R package providing functions to assist conducting good-practice analysis of Nanostring's GeoMX DSP data.
#98342Bioconductor Statial
bioMate-AI/biomate-bioconductor-kb
Statial is a suite of functions for identifying changes in cell state.
#98343Bioconductor Supersigs
bioMate-AI/biomate-bioconductor-kb
Generate SuperSigs (supervised mutational signatures) from single nucleotide variants in the cancer genome.
#98344Bioconductor Syntenet
bioMate-AI/biomate-bioconductor-kb
syntenet can be used to infer synteny networks from whole-genome protein sequences and analyze them.
#98345Bioconductor Tanggle
bioMate-AI/biomate-bioconductor-kb
Offers functions for plotting split (or implicit) networks (unrooted, undirected) and explicit networks (rooted, directed) with reticulations extending.
#98346Bioconductor Targetdecoy
bioMate-AI/biomate-bioconductor-kb
A first step in the data analysis of Mass Spectrometry (MS) based proteomics data is to identify peptides and proteins.
#98347Bioconductor Tdbasedufeadv
bioMate-AI/biomate-bioconductor-kb
This is an advanced version of TDbasedUFE, which is a comprehensive package to perform Tensor decomposition based unsupervised feature extraction.
#98348Bioconductor Transformgampoi
bioMate-AI/biomate-bioconductor-kb
Variance-stabilizing transformations help with the analysis of heteroskedastic data (i.e., data where the variance is not constant, like count data).
#98349Bioconductor Treekor
bioMate-AI/biomate-bioconductor-kb
treekoR is a novel framework that aims to utilise the hierarchical nature of single cell cytometry data to find robust and interpretable associations between cell subsets and patient clinical end…
#98350Bioconductor Visse
bioMate-AI/biomate-bioconductor-kb
This package enables the interpretation and analysis of results from a gene set enrichment analysis using network-based and text-mining approaches.