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bioconductor-mafdb.gnomadex.r2.0.1.hs37d5
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public |
Store minor allele frequency data from the Genome Aggregation Database (gnomAD exomes release 2.0.1) for the human genome version hs37d5.
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2023-06-16 |
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bioconductor-simulatorz
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public |
Simulator for Collections of Independent Genomic Data Sets
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2023-06-16 |
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bioconductor-hom.dr.inp.db
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public |
Homology information for Danio rerio from Inparanoid
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2023-06-16 |
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bioconductor-topaseq
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public |
Topology-based pathway analysis of RNA-seq data
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2023-06-16 |
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bioconductor-mafdb.gnomad.r2.0.1.grch38
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public |
Store minor allele frequency data from the Genome Aggregation Database (gnomAD release 2.0.1) for the human genome version GRCh38.
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2023-06-16 |
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bioconductor-funcisnp.data
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public |
Various data sets for use with the FunciSNP package
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2023-06-16 |
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bioconductor-mesh.bta.eg.db
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public |
Mapping table for Bos taurus Gene ID to MeSH
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2023-06-16 |
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bioconductor-lrbase.hsa.eg.db
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public |
Ligand-Receptor list for Homo sapiens (Hsa, Human, Taxonomy ID: 9606)
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2023-06-16 |
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bioconductor-lrbase.cel.eg.db
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public |
Ligand-Receptor list for Caenorhabditis elegans (Cel, Worm, Taxonomy ID: 6239)
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2023-06-16 |
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bioconductor-hom.ce.inp.db
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public |
Homology information for Caenorhabditis elegans from Inparanoid
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2023-06-16 |
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bioconductor-gpart
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public |
Human genome partitioning of dense sequencing data by identifying haplotype blocks
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2023-06-16 |
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bioconductor-mafdb.esp6500si.v2.ssa137.hs37d5
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public |
Minor allele frequency data from NHLBI ESP for hs37d5
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2023-06-16 |
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bioconductor-lrbase.mmu.eg.db
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public |
Ligand-Receptor list for Mus musculus (Mmu, Mouse, Taxonomy ID: 10090)
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2023-06-16 |
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bioconductor-geneaccord
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public |
Detection of clonally exclusive gene or pathway pairs in a cohort of cancer patients
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2023-06-16 |
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bioconductor-brainimager
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public |
BrainImageR is a package that provides the user with information of where in the human brain their gene set corresponds to. This is provided both as a continuous variable and as a easily-interpretable image. BrainImageR has additional functionality of identifying approximately when in developmental time that a gene expression dataset corresponds to. Both the spatial gene set enrichment and the developmental time point prediction are assessed in comparison to the Allen Brain Atlas reference data.
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2023-06-16 |
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bioconductor-ribosomaldatabaseproject11.5mgdb
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public |
Metagenome annotation package with for the Ribosomal Database Project 16S rRNA Database version 11.5, Bacterial and Archeal sequences. Contains a MgDb-class object, defined in the metagenomeFeatures package.
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2023-06-16 |
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bioconductor-flowfitexampledata
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public |
Example data for the flowFit package
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2023-06-16 |
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bioconductor-bioccasestudies
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public |
BiocCaseStudies: Support for the Case Studies Monograph
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2023-06-16 |
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bioconductor-focalcall
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public |
Detection of focal aberrations in DNA copy number data
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2023-06-16 |
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bioconductor-greengenes13.5mgdb
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public |
Metagenome annotation package with for the Greengenes 16S rRNA Database version 13.5. Contains a MgDb-class object, defined in the metagenomeFeatures package.
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2023-06-16 |
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bioconductor-xtrasnplocs.hsapiens.dbsnp141.grch38
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public |
Extra SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 141. The source data files used for this package were created by NCBI on May 1st, 2014, and contain SNPs mapped to reference genome GRCh38. While the SNPlocs.Hsapiens.dbSNP141.GRCh38 package contains only molecular variations of class "snp", this package contains molecular variations of other classes (in-del, heterozygous, microsatellite, named-locus, no-variation, mixed, and multinucleotide-polymorphism).
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2023-06-16 |
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bioconductor-macpet
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public |
Model based analysis for paired-end data
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2023-06-16 |
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bioconductor-countclust
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public |
Clustering and Visualizing RNA-Seq Expression Data using Grade of Membership Models
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2023-06-16 |
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bioconductor-arrayexpresshts
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public |
ArrayExpress High Throughput Sequencing Processing Pipeline
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2023-06-16 |
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bioconductor-deepbluer
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public |
DeepBlueR
|
2023-06-16 |
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biothings_client
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public |
Python Client for BioThings API services.
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2023-06-16 |
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bioconductor-srgnet
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public |
SRGnet: An R package for studying synergistic response to gene mutations from transcriptomics data
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2023-06-16 |
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hiddendomains
|
public |
hiddenDomains is a suite of programs used to identify significant enrichment of ChIP-seq reads that span large domains.
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2023-06-16 |
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r-gwasexacthw
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public |
This package contains a function to do exact Hardy-Weinburg testing (using Fisher's test) for SNP genotypes as typically obtained in a Genome Wide Association Study (GWAS).
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2023-06-16 |
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topas
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public |
This toolkit allows the efficient manipulation of sequence data in various ways. It is organized into modules: The FASTA processing modules, the FASTQ processing modules, the GFF processing modules and the VCF processing modules.
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2023-06-16 |
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r-qpcr
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public |
Model fitting, optimal model selection and calculation of various features that are essential in the analysis of quantitative real-time polymerase chain reaction (qPCR).
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2023-06-16 |
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bioconductor-snplocs.hsapiens.dbsnp151.grch38
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public |
SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 151. The source data files used for this package were created by NCBI between February 16-22, 2018, and contain SNPs mapped to reference genome GRCh38.p7 (a patched version of GRCh38 that doesn't alter chromosomes 1-22, X, Y, MT). Note that these SNPs can be "injected" in BSgenome.Hsapiens.NCBI.GRCh38 or in BSgenome.Hsapiens.UCSC.hg38.
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2023-06-16 |
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bioconductor-facsdorit
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public |
DKFZ FACS example data
|
2023-06-16 |
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bioconductor-panvizgenerator
|
public |
Generate PanViz visualisations from your pangenome
|
2023-06-16 |
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bioconductor-mcrestimate
|
public |
Misclassification error estimation with cross-validation
|
2023-06-16 |
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r-rbamtools
|
public |
Provides an R interface to functions of the 'SAMtools' C-Library by Heng Li <http://www.htslib.org/>.
|
2023-06-16 |
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bioconductor-snplocs.hsapiens.dbsnp142.grch37
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public |
SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 142. The source data files used for this package were created by NCBI on October 14, 2014, and contain SNPs mapped to reference genome GRCh37.p13. WARNING: Note that the GRCh37.p13 genome is a patched version of GRCh37 but the patch doesn't alter chromosomes 1-22, X, Y, MT. GRCh37 itself is the same as the hg19 genome from UCSC *except* for the mitochondrion chromosome. Therefore, the SNPs in this package can be "injected" in BSgenome.Hsapiens.UCSC.hg19 and they will land at the correct location but this injection will exclude chrM (i.e. nothing will be injected in that sequence).
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2023-06-16 |
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bioconductor-plrs
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public |
Piecewise Linear Regression Splines (PLRS) for the association between DNA copy number and gene expression
|
2023-06-16 |
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bioconductor-silva128.1mgdb
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public |
Metagenome annotation package with for the SILVA SSR rRNA database release 128.1, Bacterial and Archeal sequences. Contains a MgDb-class object, defined in the metagenomeFeatures package.
|
2023-06-16 |
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bioconductor-metagenomefeatures
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public |
Exploration of marker-gene sequence taxonomic annotations
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2023-06-16 |
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seqmap
|
public |
SeqMap is a tool for mapping large amount of oligonucleotide to the genome.
|
2023-06-16 |
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python-intervaltree
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public |
Faster than intervaltree_bio
|
2023-06-16 |
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bioconductor-snplocs.hsapiens.dbsnp.20120608
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public |
SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 137. The source data files used for this package were created by NCBI on June 7-8, 2012, and contain SNPs mapped to reference genome GRCh37.p5. WARNING: Note that the GRCh37.p5 genome is a patched version of GRCh37 but the patch doesn't alter chromosomes 1-22, X, Y, MT. GRCh37 itself is the same as the hg19 genome from UCSC *except* for the mitochondrion chromosome. Therefore, the SNPs in this package can be "injected" in BSgenome.Hsapiens.UCSC.hg19 and they will land at the correct location but this injection will exclude chrM (i.e. nothing will be injected in that sequence). IMPORTANT NOTE: This package is deprecated. Please use a SNPlocs data package based on a more recent dbSNP BUILD instead (e.g. BUILD 144 or BUILD 149). You can call BSgenome::available.SNPs() from R to get the list of available SNPlocs data packages.
|
2023-06-16 |
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bioconductor-nbsplice
|
public |
Negative Binomial Models to detect Differential Splicing
|
2023-06-16 |
|
bioconductor-snplocs.hsapiens.dbsnp.20101109
|
public |
SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 132. The source data files used for this package were created by NCBI on 9 November 2010 and contain SNPs mapped to reference genome GRCh37. WARNING: Note that the GRCh37 genome is the same as the hg19 genome from UCSC except for the mitochondrion chromosome. Therefore, the SNPs in this package can be "injected" in BSgenome.Hsapiens.UCSC.hg19 but this injection will exclude chrM (i.e. nothing will be injected in that sequence).
|
2023-06-16 |
|
sparcc
|
public |
SparCC is a python module for computing correlations in compositional data (16S, metagenomics, etc).
|
2023-06-16 |
|
bioconductor-charge
|
public |
CHARGE: CHromosome Assessment in R from Gene Expression data
|
2023-06-16 |
|
bioconductor-lvsmirna
|
public |
LVS normalization for Agilent miRNA data
|
2023-06-16 |
|
pysvmlight
|
public |
Interface to Thorsten Joachims' SVM-Light
|
2023-06-16 |
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bioconductor-dream4
|
public |
Synthetic Expression Data for Gene Regulatory Network Inference from the 2009 DREAM4 challenge
|
2023-06-16 |
