|
xpclr
|
public |
Code to compute xp-clr values to detect selection as per Chen, Patterson & Reich 2010.
|
2023-06-16 |
|
bioconductor-perturbatr
|
public |
Statistical Analysis of High-Throughput Genetic Perturbation Screens
|
2023-06-16 |
|
bioconductor-geneticsdesign
|
public |
Functions for designing genetics studies
|
2023-06-16 |
|
bioconductor-facopy.annot
|
public |
Annotation for the copy number alteration association and enrichment analyses with facopy
|
2023-06-16 |
|
mirtrace
|
public |
miRTrace is a new quality control and taxonomic tracing tool developed specifically for small RNA sequencing data (sRNA-Seq).
Each sample is characterized by profiling sequencing quality, read length, sequencing depth and miRNA complexity and also the
amounts of miRNAs versus undesirable sequences (derived from tRNAs, rRNAs and sequencing artifacts). In addition to these routine
quality control (QC) analyses, miRTrace can accurately and sensitively resolve taxonomic origins of small RNA-Seq data based on the
composition of clade-specific miRNAs. This feature can be used to detect cross-clade contaminations in typical lab settings. It can
also be applied for more specific applications in forensics, food quality control and clinical diagnosis, for instance tracing the
origins of meat products or detecting parasitic microRNAs in host serum.
|
2023-06-16 |
|
bioconductor-pint
|
public |
Pairwise INTegration of functional genomics data
|
2023-06-16 |
|
bioconductor-lol
|
public |
Lots Of Lasso
|
2023-06-16 |
|
bioconductor-flowqbdata
|
public |
The flowQBData package provides data files used as examples and for testing of the software provided in the flowQB package.
|
2023-06-16 |
|
bioconductor-caomicsv
|
public |
Visualization of multi-dimentional cancer genomics data
|
2023-06-16 |
|
bioconductor-affypara
|
public |
Parallelized preprocessing methods for Affymetrix Oligonucleotide Arrays
|
2023-06-16 |
|
bioconductor-charmdata
|
public |
An example dataset for use with the charm package
|
2023-06-16 |
|
bioconductor-charm
|
public |
This package implements analysis tools for DNA methylation data generated using Nimblegen microarrays and the McrBC protocol. It finds differentially methylated regions between samples, calculates percentage methylation estimates and includes array quality assessment tools.
|
2023-06-16 |
|
bioconductor-affyqcreport
|
public |
QC Report Generation for affyBatch objects
|
2023-06-16 |
|
bioconductor-rnaseqr
|
public |
RNASeqR: an R package for automated two-group RNA-Seq analysis workflow
|
2023-06-16 |
|
bioconductor-champ
|
public |
Chip Analysis Methylation Pipeline for Illumina HumanMethylation450 and EPIC
|
2023-06-16 |
|
perl-probe-perl
|
public |
Information about the currently running perl
|
2023-06-16 |
|
bioconductor-pbase
|
public |
Manipulating and exploring protein and proteomics data
|
2023-06-16 |
|
bioconductor-yaqcaffy
|
public |
Affymetrix expression data quality control and reproducibility analysis
|
2023-06-16 |
|
bioconductor-plasfia
|
public |
FIA-HRMS plasma dataset
|
2023-06-16 |
|
bioconductor-proteomicsannotationhubdata
|
public |
Transform public proteomics data resources into Bioconductor Data Structures
|
2023-06-16 |
|
bioconductor-mmpalatemirna
|
public |
Murine Palate miRNA Expression Analysis
|
2023-06-16 |
|
bioconductor-metaseqr
|
public |
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms.
|
2023-06-16 |
|
bioconductor-rhvdm
|
public |
A R implementation of HVDM (Genome Biol 2006, V7(3) R25)
|
2023-06-16 |
|
r-plsgenomics
|
public |
Routines for PLS-based genomic analyses, implementing PLS methods for classification with microarray data and prediction of transcription factor activities from combined ChIP-chip analysis. The >=1.2-1 versions include two new classification methods for microarray data: GSIM and Ridge PLS. The >=1.3 versions includes a new classification method combining variable selection and compression in logistic regression context: logit-SPLS; and an adaptive version of the sparse PLS.
|
2023-06-16 |
|
sbg-cwl-runner
|
public |
A CWL Runner for SBG platform
|
2023-06-16 |
|
refinem
|
public |
A toolbox for improving population genomes.
|
2023-06-16 |
|
perl-test-script
|
public |
Basic cross-platform tests for scripts
|
2023-06-16 |
|
bioconductor-powerexplorer
|
public |
Power Estimation Tool for RNA-Seq and proteomics data
|
2023-06-16 |
|
r-mess
|
public |
A mixed collection of useful and semi-useful diverse statistical functions, some of which may even be referenced in The R Primer book.
|
2023-06-16 |
|
bioconductor-mulder2012
|
public |
Predicting functional networks and modules of chromatin factors controlling adult stem cell fate from RNA interference screens
|
2023-06-16 |
|
perl-bio-rna-rnaalisplit
|
public |
Split and deconvolute structural RNA multiple sequence alignments
|
2023-06-16 |
|
bioconductor-htsanalyzer
|
public |
Gene set over-representation, enrichment and network analyses for high-throughput screens
|
2023-06-16 |
|
bioconductor-maqcsubsetafx
|
public |
MAQC data subset for the Affymetrix platform
|
2023-06-16 |
|
r-rismed
|
public |
A set of tools to extract bibliographic content from the National Center for Biotechnology Information (NCBI) databases, including PubMed. The name RISmed is a portmanteau of RIS (for Research Information Systems, a common tag format for bibliographic data) and PubMed.
|
2023-06-16 |
|
bioconductor-dualks
|
public |
Dual KS Discriminant Analysis and Classification
|
2023-06-16 |
|
nullarbor
|
public |
Reads to report pipeline for bacterial isolate NGS data
|
2023-06-16 |
|
bioconductor-allenpvc
|
public |
GEO accession data GSE71585 as a SingleCellExperiment
|
2023-06-16 |
|
bioconductor-scisi
|
public |
In Silico Interactome
|
2023-06-16 |
|
bioconductor-gcmap
|
public |
Tools for Connectivity Map-like analyses
|
2023-06-16 |
|
bioconductor-imetagene
|
public |
A graphical interface for the metagene package
|
2023-06-16 |
|
bioconductor-arraytv
|
public |
Implementation of wave correction for arrays
|
2023-06-16 |
|
bioconductor-missmethyl
|
public |
Analysing Illumina HumanMethylation BeadChip Data
|
2023-06-16 |
|
bioconductor-timeseriesexperiment
|
public |
Analysis for short time-series data
|
2023-06-16 |
|
bioconductor-cve
|
public |
Cancer Variant Explorer
|
2023-06-16 |
|
bioconductor-anamir
|
public |
An integrated analysis package of miRNA and mRNA expression data
|
2023-06-16 |
|
bioconductor-slgi
|
public |
Synthetic Lethal Genetic Interaction
|
2023-06-16 |
|
bioconductor-expressionview
|
public |
Visualize biclusters identified in gene expression data
|
2023-06-16 |
|
bioconductor-migsa
|
public |
Massive and Integrative Gene Set Analysis
|
2023-06-16 |
|
bioconductor-pathwaysplice
|
public |
An R Package for Unbiased Splicing Pathway Analysis
|
2023-06-16 |
|
bioconductor-gcmapweb
|
public |
A web interface for gene-set enrichment analyses
|
2023-06-16 |
