|
bioconductor-traser
|
public |
GWAS trait-associated SNP enrichment analyses in genomic intervals
|
2024-12-31 |
|
bioconductor-decomptumor2sig
|
public |
Decomposition of individual tumors into mutational signatures by signature refitting
|
2024-12-31 |
|
bioconductor-bsgenome.btaurus.ucsc.bostau9.masked
|
public |
Full masked genome sequences for Bos taurus (UCSC version bosTau9)
|
2024-12-31 |
|
bioconductor-bsgenome.rnorvegicus.ucsc.rn5.masked
|
public |
Full genome sequences for Rattus norvegicus (Rat) as provided by UCSC (rn5, Mar. 2012) and stored in Biostrings objects. The sequences are the same as in BSgenome.Rnorvegicus.UCSC.rn5, except that each of them has the 4 following masks on top: (1) the mask of assembly gaps (AGAPS mask), (2) the mask of intra-contig ambiguities (AMB mask), (3) the mask of repeats from RepeatMasker (RM mask), and (4) the mask of repeats from Tandem Repeats Finder (TRF mask). Only the AGAPS and AMB masks are "active" by default.
|
2024-12-31 |
|
bioconductor-fccac
|
public |
functional Canonical Correlation Analysis to evaluate Covariance between nucleic acid sequencing datasets
|
2024-12-31 |
|
bioconductor-cexor
|
public |
An R package to uncover high-resolution protein-DNA interactions in ChIP-exo replicates
|
2024-12-31 |
|
bioconductor-bsgenome.btaurus.ucsc.bostau3.masked
|
public |
Full genome sequences for Bos taurus (Cow) as provided by UCSC (bosTau3, Aug. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Btaurus.UCSC.bosTau3, except that each of them has the 4 following masks on top: (1) the mask of assembly gaps (AGAPS mask), (2) the mask of intra-contig ambiguities (AMB mask), (3) the mask of repeats from RepeatMasker (RM mask), and (4) the mask of repeats from Tandem Repeats Finder (TRF mask). Only the AGAPS and AMB masks are "active" by default.
|
2024-12-31 |
|
bioconductor-rgntx
|
public |
Colocalization analysis of transcriptome elements in the presence of isoform heterogeneity and ambiguity
|
2024-12-31 |
|
bioconductor-regionereloaded
|
public |
RegioneReloaded: Multiple Association for Genomic Region Sets
|
2024-12-31 |
|
bioconductor-bsgenome.ptroglodytes.ucsc.pantro3.masked
|
public |
Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro3, Oct. 2010) and stored in Biostrings objects. The sequences are the same as in BSgenome.Ptroglodytes.UCSC.panTro3, except that each of them has the 4 following masks on top: (1) the mask of assembly gaps (AGAPS mask), (2) the mask of intra-contig ambiguities (AMB mask), (3) the mask of repeats from RepeatMasker (RM mask), and (4) the mask of repeats from Tandem Repeats Finder (TRF mask). Only the AGAPS and AMB masks are "active" by default.
|
2024-12-31 |
|
bioconductor-bsgenome.hsapiens.ucsc.hg38.masked
|
public |
Full masked genomic sequences for Homo sapiens (UCSC version hg38)
|
2024-12-31 |
|
bioconductor-orfhunter
|
public |
Predict open reading frames in nucleotide sequences
|
2024-12-31 |
|
bioconductor-ga4ghclient
|
public |
A Bioconductor package for accessing GA4GH API data servers
|
2024-12-31 |
|
bioconductor-cardelino
|
public |
Clone Identification from Single Cell Data
|
2024-12-31 |
|
bioconductor-raids
|
public |
Accurate Inference of Genetic Ancestry from Cancer Sequences
|
2024-12-31 |
|
bioconductor-structuralvariantannotation
|
public |
Variant annotations for structural variants
|
2024-12-31 |
|
bioconductor-varianttoolsdata
|
public |
Data for the VariantTools tutorial
|
2024-12-31 |
|
bioconductor-snphood
|
public |
SNPhood: Investigate, quantify and visualise the epigenomic neighbourhood of SNPs using NGS data
|
2024-12-31 |
|
bioconductor-alabaster.vcf
|
public |
Save and Load Variant Data to/from File
|
2024-12-31 |
|
bioconductor-tloh
|
public |
Assessment of evidence for LOH in spatial transcriptomics pre-processed data using Bayes factor calculations
|
2024-12-31 |
|
bioconductor-varianttools
|
public |
Tools for Exploratory Analysis of Variant Calls
|
2024-12-31 |
|
bioconductor-polyphen.hsapiens.dbsnp131
|
public |
Database of PolyPhen predictions for Homo sapiens dbSNP build 131
|
2024-12-31 |
|
bioconductor-cosmic.67
|
public |
COSMIC.67
|
2024-12-31 |
|
bioconductor-proteodisco
|
public |
Generation of customized protein variant databases from genomic variants, splice-junctions and manual sequences
|
2024-12-31 |
|
bioconductor-sigspack
|
public |
Mutational Signature Estimation for Single Samples
|
2024-12-31 |
|
bioconductor-rmmquant
|
public |
RNA-Seq multi-mapping Reads Quantification Tool
|
2024-12-31 |
|
bioconductor-hicdoc
|
public |
A/B compartment detection and differential analysis
|
2024-12-31 |
|
bioconductor-clusterexperiment
|
public |
Compare Clusterings for Single-Cell Sequencing
|
2024-12-31 |
|
bioconductor-dss
|
public |
Dispersion shrinkage for sequencing data
|
2024-12-31 |
|
bioconductor-bsseq
|
public |
Analyze, manage and store whole-genome methylation data
|
2024-12-31 |
|
bioconductor-apalyzer
|
public |
A toolkit for APA analysis using RNA-seq data
|
2024-12-31 |
|
bioconductor-damefinder
|
public |
Finds DAMEs - Differential Allelicly MEthylated regions
|
2024-12-31 |
|
bioconductor-icetea
|
public |
Integrating Cap Enrichment with Transcript Expression Analysis
|
2024-12-31 |
|
bioconductor-sift.hsapiens.dbsnp132
|
public |
Database of SIFT predictions for Homo sapiens dbSNP build 132
|
2024-12-31 |
|
bioconductor-cnvrd2
|
public |
CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data.
|
2024-12-31 |
|
bioconductor-mutationalpatterns
|
public |
Comprehensive genome-wide analysis of mutational processes
|
2024-12-31 |
|
bioconductor-sift.hsapiens.dbsnp137
|
public |
Database of PROVEAN/SIFT predictions for Homo sapiens dbSNP build 137
|
2024-12-31 |
|
bioconductor-scoreinvhap
|
public |
Get inversion status in predefined regions
|
2024-12-31 |
|
strandphaser
|
public |
Phase Strand-seq data
|
2024-12-31 |
|
bioconductor-mungesumstats
|
public |
Standardise summary statistics from GWAS
|
2024-12-31 |
|
bioconductor-seqcat
|
public |
High Throughput Sequencing Cell Authentication Toolkit
|
2024-12-31 |
|
bioconductor-titancna
|
public |
Subclonal copy number and LOH prediction from whole genome sequencing of tumours
|
2024-12-31 |
|
bioconductor-gmapr
|
public |
An R interface to the GMAP/GSNAP/GSTRUCT suite
|
2024-12-31 |
|
bioconductor-myvariant
|
public |
Accesses MyVariant.info variant query and annotation services
|
2024-12-31 |
|
bioconductor-igvr
|
public |
igvR: integrative genomics viewer
|
2024-12-31 |
|
bioconductor-demuxsnp
|
public |
scRNAseq demultiplexing using cell hashing and SNPs
|
2024-12-31 |
|
bioconductor-transmogr
|
public |
Modify a set of reference sequences using a set of variants
|
2024-12-31 |
|
bioconductor-bbcanalyzer
|
public |
BBCAnalyzer: an R/Bioconductor package for visualizing base counts
|
2024-12-31 |
|
bioconductor-fcscan
|
public |
fcScan for detecting clusters of coordinates with user defined options
|
2024-12-31 |
|
bioconductor-gwasurvivr
|
public |
gwasurvivr: an R package for genome wide survival analysis
|
2024-12-31 |
