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bioconductor-bsgenome.osativa.msu.msu7
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public |
Oryza sativa full genome (MSU7)
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2025-04-22 |
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bioconductor-bsgenome.mmusculus.ucsc.mm9.masked
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public |
Full genome sequences for Mus musculus (Mouse) as provided by UCSC (mm9, Jul. 2007) and stored in Biostrings objects. The sequences are the same as in BSgenome.Mmusculus.UCSC.mm9, 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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2025-04-22 |
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bioconductor-bsgenome.mmusculus.ucsc.mm8.masked
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public |
Full genome sequences for Mus musculus (Mouse) as provided by UCSC (mm8, Feb. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Mmusculus.UCSC.mm8, 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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2025-04-22 |
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bioconductor-charge
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public |
CHARGE: CHromosome Assessment in R from Gene Expression data
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2025-04-22 |
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bioconductor-bsgenome.mmusculus.ucsc.mm8
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public |
Full genome sequences for Mus musculus (Mouse) as provided by UCSC (mm8, Feb. 2006) and stored in Biostrings objects.
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2025-04-22 |
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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)
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2025-04-22 |
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bioconductor-bsgenome.mmulatta.ucsc.rhemac8
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public |
Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac8, Nov. 2015) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.mmulatta.ucsc.rhemac3.masked
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public |
Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac3, Oct. 2010) and stored in Biostrings objects. The sequences are the same as in BSgenome.Mmulatta.UCSC.rheMac3, 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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2025-04-22 |
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bioconductor-bsgenome.mmulatta.ucsc.rhemac3
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public |
Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac3, Oct. 2010) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.mmulatta.ucsc.rhemac2.masked
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public |
Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac2, Jan. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Mmulatta.UCSC.rheMac2, 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. NOTE: In most assemblies available at UCSC, Tandem Repeats Finder repeats were filtered to retain only the repeats with period <= 12. However, the filtering was omitted for this assembly, so the TRF masks contain all Tandem Repeats Finder results.
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2025-04-22 |
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bioconductor-bsgenome.mmulatta.ucsc.rhemac2
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public |
Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac2, Jan. 2006) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.mfuro.ucsc.musfur1
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public |
Full genome sequences for Mustela putorius furo (Ferret) as provided by UCSC (musFur1, Apr. 2011) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.mfascicularis.ncbi.5.0
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public |
Full genome sequences for Macaca fascicularis (long-tailed macaque) as provided by NCBI (Macaca_fascicularis_5.0, 2013-06-12) and stored in Biostrings objects.
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2025-04-22 |
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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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2025-04-22 |
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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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2025-04-22 |
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bioconductor-icnv
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public |
Integrated Copy Number Variation detection
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2025-04-22 |
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bioconductor-bsgenome.hsapiens.ucsc.hg18.masked
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public |
Full genome sequences for Homo sapiens (Human) as provided by UCSC (hg18, Mar. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Hsapiens.UCSC.hg18, 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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2025-04-22 |
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bioconductor-bsgenome.hsapiens.ucsc.hg17.masked
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public |
Full masked genome sequences for Homo sapiens (UCSC version hg17)
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2025-04-22 |
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bioconductor-bsgenome.hsapiens.ucsc.hg17
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public |
Full genome sequences for Homo sapiens (UCSC version hg17)
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2025-04-22 |
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bioconductor-bsgenome.hsapiens.ncbi.grch38
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public |
Full genome sequences for Homo sapiens (Human) as provided by NCBI (GRCh38, 2013-12-17) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.hsapiens.1000genomes.hs37d5
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public |
1000genomes Phase2 Reference Genome Sequence (hs37d5), based on NCBI GRCh37.
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2025-04-22 |
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bioconductor-bsgenome.ggallus.ucsc.galgal5
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public |
Full genome sequences for Gallus gallus (Chicken) as provided by UCSC (galGal5, Dec. 2015) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.ggallus.ucsc.galgal4.masked
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public |
Full genome sequences for Gallus gallus (Chicken) as provided by UCSC (galGal4, Nov. 2011) and stored in Biostrings objects. The sequences are the same as in BSgenome.Ggallus.UCSC.galGal4, 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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2025-04-22 |
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bioconductor-bsgenome.ggallus.ucsc.galgal4
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public |
Full genome sequences for Gallus gallus (Chicken) as provided by UCSC (galGal4, Nov. 2011) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.ggallus.ucsc.galgal3.masked
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public |
Full genome sequences for Gallus gallus (Chicken) as provided by UCSC (galGal3, May 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Ggallus.UCSC.galGal3, 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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2025-04-22 |
