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bioconductor-prolocgui
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public |
Interactive visualisation of spatial proteomics data
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2025-01-01 |
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bioconductor-categorycompare
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public |
Meta-analysis of high-throughput experiments using feature annotations
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2025-01-01 |
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bioconductor-attract
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public |
Methods to Find the Gene Expression Modules that Represent the Drivers of Kauffman's Attractor Landscape
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2025-01-01 |
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bioconductor-omicrexposome
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public |
Exposome and omic data associatin and integration analysis
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2025-01-01 |
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bioconductor-motifmatchr
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public |
Fast Motif Matching in R
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2025-01-01 |
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bioconductor-matrixrider
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public |
Obtain total affinity and occupancies for binding site matrices on a given sequence
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2025-01-01 |
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bioconductor-motifstack
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public |
Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
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2024-12-31 |
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bioconductor-chromvar
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public |
Chromatin Variation Across Regions
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2024-12-31 |
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r-deconstructsigs
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public |
Takes sample information in the form of the fraction of mutations in each of 96 trinucleotide contexts and identifies the weighted combination of published signatures that, when summed, most closely reconstructs the mutational profile.
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2024-12-31 |
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bioconductor-chipcomp
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public |
Quantitative comparison of multiple ChIP-seq datasets
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2024-12-31 |
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bioconductor-codex
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public |
A Normalization and Copy Number Variation Detection Method for Whole Exome Sequencing
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2024-12-31 |
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bioconductor-bsgenome.hsapiens.ucsc.hg19.masked
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public |
Full masked genome sequences for Homo sapiens (UCSC version hg19, based on GRCh37.p13)
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2024-12-31 |
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bioconductor-traser
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public |
GWAS trait-associated SNP enrichment analyses in genomic intervals
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2024-12-31 |
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bioconductor-bsgenome.rnorvegicus.ucsc.rn5.masked
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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.
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2024-12-31 |
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bioconductor-fccac
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public |
functional Canonical Correlation Analysis to evaluate Covariance between nucleic acid sequencing datasets
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2024-12-31 |
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bioconductor-cexor
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public |
An R package to uncover high-resolution protein-DNA interactions in ChIP-exo replicates
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2024-12-31 |
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bioconductor-bsgenome.btaurus.ucsc.bostau3.masked
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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.
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2024-12-31 |
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bioconductor-bsgenome.ptroglodytes.ucsc.pantro3.masked
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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.
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2024-12-31 |
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bioconductor-bsgenome.hsapiens.ucsc.hg38.masked
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public |
Full masked genomic sequences for Homo sapiens (UCSC version hg38)
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2024-12-31 |
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bioconductor-ga4ghclient
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public |
A Bioconductor package for accessing GA4GH API data servers
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2024-12-31 |
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bioconductor-varianttoolsdata
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public |
Data for the VariantTools tutorial
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2024-12-31 |
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bioconductor-snphood
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public |
SNPhood: Investigate, quantify and visualise the epigenomic neighbourhood of SNPs using NGS data
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2024-12-31 |
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bioconductor-varianttools
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public |
Tools for Exploratory Analysis of Variant Calls
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2024-12-31 |
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bioconductor-polyphen.hsapiens.dbsnp131
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public |
Database of PolyPhen predictions for Homo sapiens dbSNP build 131
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2024-12-31 |
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bioconductor-cosmic.67
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public |
COSMIC.67
|
2024-12-31 |
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bioconductor-rmmquant
|
public |
RNA-Seq multi-mapping Reads Quantification Tool
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2024-12-31 |
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bioconductor-clusterexperiment
|
public |
Compare Clusterings for Single-Cell Sequencing
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2024-12-31 |
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bioconductor-dss
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public |
Dispersion shrinkage for sequencing data
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2024-12-31 |
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bioconductor-bsseq
|
public |
Analyze, manage and store whole-genome methylation data
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2024-12-31 |
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bioconductor-icetea
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public |
Integrating Cap Enrichment with Transcript Expression Analysis
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2024-12-31 |
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bioconductor-sift.hsapiens.dbsnp132
|
public |
Database of SIFT predictions for Homo sapiens dbSNP build 132
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2024-12-31 |
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bioconductor-cnvrd2
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public |
CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data.
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2024-12-31 |
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bioconductor-mutationalpatterns
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public |
Comprehensive genome-wide analysis of mutational processes
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2024-12-31 |
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bioconductor-sift.hsapiens.dbsnp137
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public |
Database of PROVEAN/SIFT predictions for Homo sapiens dbSNP build 137
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2024-12-31 |
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bioconductor-scoreinvhap
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public |
Get inversion status in predefined regions
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2024-12-31 |
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bioconductor-seqcat
|
public |
High Throughput Sequencing Cell Authentication Toolkit
|
2024-12-31 |
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bioconductor-titancna
|
public |
Subclonal copy number and LOH prediction from whole genome sequencing of tumours
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2024-12-31 |
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bioconductor-gmapr
|
public |
An R interface to the GMAP/GSNAP/GSTRUCT suite
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2024-12-31 |
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bioconductor-myvariant
|
public |
Accesses MyVariant.info variant query and annotation services
|
2024-12-31 |
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bioconductor-igvr
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public |
igvR: integrative genomics viewer
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2024-12-31 |
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bioconductor-bbcanalyzer
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public |
BBCAnalyzer: an R/Bioconductor package for visualizing base counts
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2024-12-31 |
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bioconductor-gwasurvivr
|
public |
gwasurvivr: an R package for genome wide survival analysis
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2024-12-31 |
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bioconductor-uniquorn
|
public |
Identification of cancer cell lines based on their weighted mutational/ variational fingerprint
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2024-12-31 |
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bioconductor-purecn
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public |
Copy number calling and SNV classification using targeted short read sequencing
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2024-12-31 |
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bioconductor-genomicfiles
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public |
Distributed computing by file or by range
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2024-12-31 |
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bioconductor-helloranges
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public |
Introduce *Ranges to bedtools users
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2024-12-31 |
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bioconductor-bsgenome.drerio.ucsc.danrer5.masked
|
public |
Full genome sequences for Danio rerio (Zebrafish) as provided by UCSC (danRer5, Jul. 2007) and stored in Biostrings objects. The sequences are the same as in BSgenome.Drerio.UCSC.danRer5, 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.
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2024-12-31 |
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bioconductor-bsgenome.dmelanogaster.ucsc.dm3.masked
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public |
Full genome sequences for Drosophila melanogaster (Fly) as provided by UCSC (dm3, Apr. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Dmelanogaster.UCSC.dm3, 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.
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2024-12-31 |
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bioconductor-bsgenome.mmusculus.ucsc.mm10.masked
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public |
Full masked genome sequences for Mus musculus (UCSC genome mm10, based on GRCm38.p6)
|
2024-12-31 |
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bioconductor-bsgenome.btaurus.ucsc.bostau6.masked
|
public |
Full genome sequences for Bos taurus (Cow) as provided by UCSC (bosTau6, Nov. 2009) and stored in Biostrings objects. The sequences are the same as in BSgenome.Btaurus.UCSC.bosTau6, 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 |
