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r-whopgenome
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public |
Provides very fast access to whole genome, population scale variation data from VCF files and sequence data from FASTA-formatted files. It also reads in alignments from FASTA, Phylip, MAF and other file formats. Provides easy-to-use interfaces to genome annotation from UCSC and Bioconductor and gene ontology data from AmiGO and is capable to read, modify and write PLINK .PED-format pedigree files.
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2024-12-17 |
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el_gato
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public |
Perform Legionella pneumophila Sequence Based Typing (SBT) from short reads or assemblies.
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2024-12-17 |
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mrbayes
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public |
Bayesian Inference of Phylogeny
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2024-12-17 |
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beagle-lib
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public |
general purpose library for evaluating the likelihood of sequence evolution on trees
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2024-12-17 |
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trycycler
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public |
Trycycler is a tool for generating consensus long-read assemblies for bacterial genomes
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2024-12-17 |
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bioconductor-dnacopy
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public |
DNA Copy Number Data Analysis
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2024-12-17 |
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bioconductor-amountain
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public |
Active modules for multilayer weighted gene co-expression networks: a continuous optimization approach
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2024-12-17 |
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bellmans-gapc
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public |
A language and compiler for algebraic dynamic programming.
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2024-12-17 |
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bioconductor-cispath
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public |
Visualization and management of the protein-protein interaction networks.
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2024-12-17 |
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bioconductor-flowpeaks
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public |
An R package for flow data clustering
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2024-12-17 |
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bioconductor-gdsfmt
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public |
R Interface to CoreArray Genomic Data Structure (GDS) Files
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2024-12-17 |
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bioconductor-grenits
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public |
Gene Regulatory Network Inference Using Time Series
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2024-12-17 |
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bioconductor-fithic
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public |
Confidence estimation for intra-chromosomal contact maps
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2024-12-17 |
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bioconductor-hmmcopy
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public |
Copy number prediction with correction for GC and mappability bias for HTS data
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2024-12-17 |
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bioconductor-genie3
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public |
GEne Network Inference with Ensemble of trees
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2024-12-17 |
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bioconductor-biocparallel
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public |
Bioconductor facilities for parallel evaluation
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2024-12-17 |
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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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2024-12-17 |
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rmats
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public |
MATS is a computational tool to detect differential alternative splicing events from RNA-Seq data.
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2024-12-17 |
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bindash
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public |
Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop
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2024-12-17 |
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smudgeplot
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public |
Inference of ploidy and heterozygosity structure using whole genome sequencing data.
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2024-12-17 |
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pybbi
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public |
Python bindings to UCSC Big Binary (bigWig/bigBed) file library
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2024-12-17 |
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bioconductor-rbowtie
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public |
R bowtie wrapper
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2024-12-17 |
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zol
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public |
zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters.
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2024-12-17 |
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k8
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public |
Lightweight JavaScript shell based on Google's V8 JavaScript engine
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2024-12-17 |
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bioconductor-confessdata
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public |
Example dataset for CONFESS package
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2024-12-17 |
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bioconductor-cmap
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public |
Annotation data file for cMAP assembled using data from public data repositories
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2024-12-17 |
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bioconductor-mofadata
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public |
Data package for Multi-Omics Factor Analysis (MOFA)
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2024-12-17 |
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bioconductor-illumina450probevariants.db
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public |
Annotation Package combining variant data from 1000 Genomes Project for Illumina HumanMethylation450 Bead Chip probes
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2024-12-17 |
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bioconductor-minionsummarydata
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public |
Summarised MinION sequencing data published by Ashton et al. 2015
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2024-12-17 |
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bioconductor-affyhgu133a2expr
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public |
Affymetrix Human Genome U133A 2.0 Array (GPL571) Expression Data Package
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2024-12-17 |
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bioconductor-pepsnmrdata
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public |
Datasets for the PepsNMR package
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2024-12-17 |
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bioconductor-breastcancerunt
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public |
Gene expression dataset published by Sotiriou et al. [2007] (UNT).
|
2024-12-17 |
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bioconductor-hgu133plus2barcodevecs
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public |
hgu133plus2 data for barcode
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2024-12-17 |
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bioconductor-hapmap500knsp
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public |
Sample data - Hapmap 500K NSP Affymetrix
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2024-12-17 |
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bioconductor-copdsexualdimorphism.data
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public |
Data to support sexually dimorphic and COPD differential analysis for gene expression and methylation.
|
2024-12-17 |
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bioconductor-frmaexampledata
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public |
Frma Example Data
|
2024-12-17 |
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bioconductor-gse159526
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public |
Placental cell DNA methylation data from GEO accession GSE159526
|
2024-12-17 |
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bioconductor-plotgardenerdata
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public |
Datasets and test data files for the plotgardener package
|
2024-12-17 |
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bioconductor-hapmapsnp5
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public |
Sample data - Hapmap SNP 5.0 Affymetrix
|
2024-12-17 |
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bioconductor-connectivitymap
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public |
Functional connections between drugs, genes and diseases as revealed by common gene-expression changes
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2024-12-17 |
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bioconductor-rtcga.pancan12
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public |
PanCan 12 from Genome Cancer Browser
|
2024-12-17 |
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bioconductor-hivcdnavantwout03
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public |
T cell line infections with HIV-1 LAI (BRU)
|
2024-12-17 |
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bioconductor-jaspar2016
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public |
Data package for JASPAR 2016
|
2024-12-17 |
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bioconductor-breastcancerupp
|
public |
Gene expression dataset published by Miller et al. [2005] (UPP).
|
2024-12-17 |
|
bioconductor-egseadata
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public |
Gene set collections for the EGSEA package
|
2024-12-17 |
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bioconductor-lymphoseqdb
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public |
This package provides annotation databases that support the package LymphoSeq.
|
2024-12-17 |
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bioconductor-blimatestingdata
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public |
Data for testing of the package blima.
|
2024-12-17 |
|
bioconductor-maqcexpression4plex
|
public |
Sample Expression Data - MAQC / HG18 - NimbleGen
|
2024-12-17 |
|
bioconductor-hapmap500ksty
|
public |
Sample data - Hapmap 500K STY Affymetrix
|
2024-12-17 |
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bioconductor-ratchrloc
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public |
Annotation data file for ratCHRLOC assembled using data from public data repositories
|
2024-12-17 |
