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bioconductor-genenetworkbuilder
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public |
GeneNetworkBuilder: a bioconductor package for building regulatory network using ChIP-chip/ChIP-seq data and Gene Expression Data
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2025-04-22 |
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bioconductor-cnorfeeder
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public |
Integration of CellNOptR to add missing links
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2025-04-22 |
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bioconductor-cnordt
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public |
Add-on to CellNOptR: Discretized time treatments
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2025-04-22 |
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bioconductor-phenstat
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public |
Statistical analysis of phenotypic data
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2025-04-22 |
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bioconductor-hiergwas
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public |
Asessing statistical significance in predictive GWA studies
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2025-04-22 |
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bioconductor-hierinf
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public |
Hierarchical Inference
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2025-04-22 |
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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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2025-04-22 |
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r-rbamtools
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public |
Provides an R interface to functions of the 'SAMtools' C-Library by Heng Li <http://www.htslib.org/>.
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2025-04-22 |
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bioconductor-chipanalyser
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public |
ChIPanalyser: Predicting Transcription Factor Binding Sites
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2025-04-22 |
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bioconductor-xtrasnplocs.hsapiens.dbsnp144.grch38
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public |
Extra SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 144. The source data files used for this package were created by NCBI on May 30, 2015, and contain SNPs mapped to reference genome GRCh38.p2 (a patched version of GRCh38 that doesn't alter chromosomes 1-22, X, Y, MT). While the SNPlocs.Hsapiens.dbSNP144.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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2025-04-22 |
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bioconductor-xtrasnplocs.hsapiens.dbsnp144.grch37
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public |
Extra SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 144. The source data files used for this package were created by NCBI on May 29-30, 2015, and contain SNPs mapped to reference genome GRCh37.p13 (a patched version of GRCh37 that doesn't alter chromosomes 1-22, X, Y, MT). While the SNPlocs.Hsapiens.dbSNP144.GRCh37 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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2025-04-22 |
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bioconductor-biotmle
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public |
Targeted Learning with Moderated Statistics for Biomarker Discovery
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2025-04-22 |
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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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2025-04-22 |
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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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2025-04-22 |
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bioconductor-snplocs.hsapiens.dbsnp150.grch38
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public |
SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 150. The source data files used for this package were created by NCBI between March 12-14, 2017, 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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2025-04-22 |
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bioconductor-snplocs.hsapiens.dbsnp149.grch38
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public |
SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 149. The source data files used for this package were created by NCBI between November 8-12, 2016, 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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2025-04-22 |
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bioconductor-snplocs.hsapiens.dbsnp144.grch37
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public |
SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 144. The source data files used for this package were created by NCBI on May 29-30, 2015, and contain SNPs mapped to reference genome GRCh37.p13. WARNING: Note that the GRCh37.p13 genome is a patched version of GRCh37. However 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 position but this injection will exclude chrM (i.e. nothing will be injected in that sequence).
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2025-04-22 |
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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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2025-04-22 |
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bioconductor-snplocs.hsapiens.dbsnp141.grch38
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public |
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. Note that these SNPs can be "injected" in BSgenome.Hsapiens.NCBI.GRCh38 or in BSgenome.Hsapiens.UCSC.hg38. 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.
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2025-04-22 |
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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.
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2025-04-22 |
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bioconductor-leebamviews
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public |
leeBamViews -- multiple yeast RNAseq samples excerpted from Lee 2009
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2025-04-22 |
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bioconductor-gcapc
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public |
GC Aware Peak Caller
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2025-04-22 |
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bioconductor-bsgenome.vvinifera.urgi.iggp8x
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public |
Full reference nuclear genome sequences for Vitis vinifera subsp. vinifera PN40024 (derived from Pinot Noir and close to homozygosity after 6-9 rounds of selfing) as assembled by the IGGP (version 8X) and available at the URGI (INRA). More details in Jaillon et al (Nature, 2007).
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2025-04-22 |
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bioconductor-bsgenome.vvinifera.urgi.iggp12xv2
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public |
Full reference nuclear genome sequences for Vitis vinifera subsp. vinifera PN40024 (derived from Pinot Noir and close to homozygosity after 6-9 rounds of selfing) as assembled by the IGGP (version 12Xv2) and available at the URGI (INRA)
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2025-04-22 |
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bioconductor-macpet
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public |
Model based analysis for paired-end data
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2025-04-22 |
