|
bioconductor-farms
|
public |
FARMS - Factor Analysis for Robust Microarray Summarization
|
2025-04-22 |
|
nest
|
public |
NEST is a simulator for spiking neural network models.
|
2025-04-22 |
|
bioconductor-cnanorm
|
public |
A normalization method for Copy Number Aberration in cancer samples
|
2025-04-22 |
|
bioconductor-clonality
|
public |
Clonality testing
|
2025-04-22 |
|
bioconductor-clomial
|
public |
Infers clonal composition of a tumor
|
2025-04-22 |
|
bioconductor-wiggleplotr
|
public |
Make read coverage plots from BigWig files
|
2025-04-22 |
|
bioconductor-raggedexperiment
|
public |
Representation of Sparse Experiments and Assays Across Samples
|
2025-04-22 |
|
bioconductor-somaticsignatures
|
public |
Somatic Signatures
|
2025-04-22 |
|
bioconductor-netreg
|
public |
Network-Regularized Regression Models
|
2025-04-22 |
|
bioconductor-chromdraw
|
public |
chromDraw is a R package for drawing the schemes of karyotypes in the linear and circular fashion.
|
2025-04-22 |
|
bioconductor-cleaver
|
public |
Cleavage of Polypeptide Sequences
|
2025-04-22 |
|
bioconductor-chromplot
|
public |
Global visualization tool of genomic data
|
2025-04-22 |
|
bioconductor-arrayexpress
|
public |
Access the ArrayExpress Collection at EMBL-EBI Biostudies and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet
|
2025-04-22 |
|
bioconductor-ioniser
|
public |
Quality Assessment Tools for Oxford Nanopore MinION data
|
2025-04-22 |
|
fastqmetrics
|
public |
Extract metrics from a fastq file, streaming
|
2025-04-22 |
|
phylopandas
|
public |
Pandas for phylogenetics
|
2025-04-22 |
|
polymutt
|
public |
Li B, Chen W, Zhan X, Busonero F, Sanna S, et al. (2012) A Likelihood-Based Framework for Variant Calling and De Novo Mutation Detection in Families. PLoS Genet 8(10): e1002944. doi:10.1371/journal.pgen.1002944
|
2025-04-22 |
|
bioconductor-rcy3
|
public |
Functions to Access and Control Cytoscape
|
2025-04-22 |
|
snpomatic
|
public |
SNP-o-matic is a fast, stringent short-read mapping software.
|
2025-04-22 |
|
perl-file-copy-link
|
public |
Perl extension for replacing a link by a copy of the linked file.
|
2025-04-22 |
|
r-pamr
|
public |
Some functions for sample classification in microarrays
|
2025-04-22 |
|
ngless
|
public |
A tool for short-read processing with a focus on metagenomics
|
2025-04-22 |
|
r-ic10trainingdata
|
public |
Training datasets for iC10; which implements the classifier described in the paper 'Genome-driven integrated classification of breast cancer validated in over 7,500 samples' (Ali HR et al., Genome Biology 2014). It uses copy number and/or expression form breast cancer data, trains a pamr classifier (Tibshirani et al.) with the features available and predicts the iC10 group. Genomic annotation for the training dataset has been obtained from Mark Dunning's lluminaHumanv3.db package.
|
2025-04-22 |
|
bioconductor-banocc
|
public |
Bayesian ANalysis Of Compositional Covariance
|
2025-04-22 |
|
r-swamp
|
public |
Collection of functions to connect the structure of the data with the information on the samples. Three types of associations are covered: 1. linear model of principal components. 2. hierarchical clustering analysis. 3. distribution of features-sample annotation associations. Additionally, the inter-relation between sample annotations can be analyzed. Simple methods are provided for the correction of batch effects and removal of principal components.
|
2025-04-22 |
