Rui:Data Analysis: Difference between revisions

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==RNAseq analysis key notes==
==RNAseq analysis key notes==
* iGenome packages
* iGenome packages [http://tophat.cbcb.umd.edu/igenomes.html]
# UCSC genome package: [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:Tophat_mapping_10.27.11]
# UCSC genome package: [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:Tophat_mapping_10.27.11]
# Ensemble genome package: [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:Tophat_11.21.11#Re-download_Ensemble_package_from_iGenome_.5B1.5D]
# Ensemble genome package: [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:Tophat_11.21.11#Re-download_Ensemble_package_from_iGenome_.5B1.5D]


* Comparison of RNAseq analysis programs: [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:RNAseq_analysis_on_Hiseq111005#Comparison_of_program]
* Comparison of RNAseq analysis programs: [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:RNAseq_analysis_on_Hiseq111005#Comparison_of_program]

Revision as of 19:05, 22 November 2011

Examples

Jeff's samples:
Kun:LabNotes/Haplotyping/2010-9-17 [1]
Transcriptome:
Kun:LabNotes/SingleCellExpr/2011-6-13 [2]
Haplotyping:
Kun:LabNotes/Haplotyping/2011-6-14 [3]

Data analysis

RNAseq analysis key notes

  • iGenome packages [4]
  1. UCSC genome package: [5]
  2. Ensemble genome package: [6]
  • Comparison of RNAseq analysis programs: [7]