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software [2013/10/17 22:13]
xhx
software [2015/05/08 15:06] (current)
xhx [MDOS]
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 ==== Genomix ==== ==== Genomix ====
-Genomix is parallel sof, available at [[https://​github.com/​uci-cbcl/​genomix]]+ 
 +Parallel genome assembly using Hyracks, available at [[https://​github.com/​uci-cbcl/​genomix|https://​github.com/​uci-cbcl/​genomix]] 
 + 
 +==== EXTREME ==== 
 +An online EM implementation of the MEME model for fast motif discovery in large ChIP-Seq and DNase-Seq Footprinting data, available at [[https://​github.com/​uci-cbcl/​EXTREME]]
  
 ==== PyLOH ==== ==== PyLOH ====
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 ==== TEMP ==== ==== TEMP ====
-TEMP is a tool for transcripts abundances estimation from heterogeneous tissue sample of RNA-Seq data. TEMP is available at [[https://​github.com/​uci-cbcl/​TEMT]] +tool for transcripts abundances estimation from heterogeneous tissue sample of RNA-Seq dataavailable at [[https://​github.com/​uci-cbcl/​TEMT]]
  
 +==== GBMCI ====
 +GBMCI is a tool for survival analysis by direct concordance index learning using gradient boosting, available at [[https://​github.com/​uci-cbcl/​GBMCI]]
 ==== AREM ==== ==== AREM ====
 AREM is a tool for ChIP-seq analysis, and is able to discover peaks in repeat regions of the genomes. AREM is available at [[software/​arem | Aligning Reads from ChIP-seq data by expectation-maximization ]] AREM is a tool for ChIP-seq analysis, and is able to discover peaks in repeat regions of the genomes. AREM is available at [[software/​arem | Aligning Reads from ChIP-seq data by expectation-maximization ]]
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 ==== MDOS ==== ==== MDOS ====
-[[http://​www.ics.uci.edu/​~xhx/​project/​mdos | MDOS]] motif discovery using orthologous sequences (alignment independent) 
  
 +[[https://​github.com/​uci-cbcl/​mdos|MDOS]] motif discovery using orthologous sequences (alignment independent)
  
 ==== iPubMed ==== ==== iPubMed ====
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