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bioconductor-bsgenome.vvinifera.urgi.iggp12xv0
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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 12Xv0) and available at the URGI (INRA)
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2025-04-22 |
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bioconductor-nethet
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public |
A bioconductor package for high-dimensional exploration of biological network heterogeneity
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2025-04-22 |
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bioconductor-bsgenome.tguttata.ucsc.taegut2
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public |
Full genome sequences for Taeniopygia guttata (Zebra finch) as provided by UCSC (taeGut2, Feb. 2013) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.tguttata.ucsc.taegut1.masked
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public |
Full genome sequences for Taeniopygia guttata (Zebra finch) as provided by UCSC (taeGut1, Jul. 2008) and stored in Biostrings objects. The sequences are the same as in BSgenome.Tguttata.UCSC.taeGut1, except that each of them has the 2 following masks on top: (1) the mask of assembly gaps (AGAPS mask), and (2) the mask of intra-contig ambiguities (AMB mask). Both masks are "active" by default.
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2025-04-22 |
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bioconductor-bsgenome.tguttata.ucsc.taegut1
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public |
Full genome sequences for Taeniopygia guttata (Zebra finch) as provided by UCSC (taeGut1, Jul. 2008) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.tgondii.toxodb.7.0
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public |
Toxoplasma gondii ME49 (ToxoDB-7.0)
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2025-04-22 |
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bioconductor-bsgenome.sscrofa.ucsc.susscr3.masked
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public |
Full genome sequences for Sus scrofa (Pig) as provided by UCSC (susScr3, Aug. 2011) and stored in Biostrings objects. The sequences are the same as in BSgenome.Sscrofa.UCSC.susScr3, 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.sscrofa.ucsc.susscr3
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public |
Full genome sequences for Sus scrofa (Pig) as provided by UCSC (susScr3, Aug. 2011) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.sscrofa.ucsc.susscr11
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public |
Full genome sequences for Sus scrofa (Pig) as provided by UCSC (susScr11, Feb. 2017) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-splicesites
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public |
Performs splice centered analysis on RNA-seq data.
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2025-04-22 |
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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
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2025-04-22 |
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bioconductor-bsgenome.scerevisiae.ucsc.saccer3
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public |
Saccharomyces cerevisiae (Yeast) full genome as provided by UCSC (sacCer3, April 2011) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.scerevisiae.ucsc.saccer2
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public |
Saccharomyces cerevisiae (Yeast) full genome as provided by UCSC (sacCer2, June 2008) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.scerevisiae.ucsc.saccer1
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public |
Saccharomyces cerevisiae (Yeast) full genome as provided by UCSC (sacCer1, Oct. 2003) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.rnorvegicus.ucsc.rn6
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public |
Full genome sequences for Rattus norvegicus (Rat) as provided by UCSC (rn6, Jul. 2014) and stored in Biostrings objects.
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2025-04-22 |
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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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2025-04-22 |
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bioconductor-bsgenome.rnorvegicus.ucsc.rn5
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public |
Full genome sequences for Rattus norvegicus (Rat) as provided by UCSC (rn5, Mar. 2012) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.rnorvegicus.ucsc.rn4.masked
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public |
Full genome sequences for Rattus norvegicus (Rat) as provided by UCSC (rn4, Nov. 2004) and stored in Biostrings objects. The sequences are the same as in BSgenome.Rnorvegicus.UCSC.rn4, 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.rnorvegicus.ucsc.rn4
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public |
Full genome sequences for Rattus norvegicus (Rat) as provided by UCSC (rn4, Nov. 2004) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.ptroglodytes.ucsc.pantro6
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public |
Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro6, Jan. 2018) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.ptroglodytes.ucsc.pantro5
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public |
Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro5, May 2016) and stored in Biostrings objects.
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2025-04-22 |
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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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2025-04-22 |
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bioconductor-bsgenome.ptroglodytes.ucsc.pantro3
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public |
Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro3, Oct. 2010) and stored in Biostrings objects.
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2025-04-22 |
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bioconductor-bsgenome.ptroglodytes.ucsc.pantro2.masked
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public |
Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro2, Mar. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Ptroglodytes.UCSC.panTro2, 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.ptroglodytes.ucsc.pantro2
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public |
Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro2, Mar. 2006) and stored in Biostrings objects.
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2025-04-22 |
