Protocols: Difference between revisions
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* | Assay pipeline | ||
* Protocols:RNA_extraction | |||
* Protocols:HeliScopeCAGE | |||
* Protocols:Low_quantity_HeliScopeCAGE | |||
* Protocols:SmallRNAseq | |||
* Protocols:RNAseq | |||
Computational Pipeline | |||
* Protocols:rRNAdust | |||
* Protocols:HeliScopeCAGE_read_alignment - delve, filtering (Q20 + percent identity), CTSS | |||
* Protocols:RNAseq_read_alignment - TopHat, Cufflinks, (Trinity?), Cuffmerge | |||
* Protocols:SmallRNAseq_read_alignment - BWA | |||
Computational analysis | |||
* Protocols:CAGE_peak_calling | |||
* Protocols:GOstat_on_coexpression_cluster | |||
* Protocols:GOstat_on_MARA_motif_target | |||
* Protocols:Sample_enrichment_analysis_on_CAGE_peak_expression | |||
* Protocols:Sample_enrichment_analysis_on_coexpression_cluster | |||
* Protocols:Motif_Activity_Response_Analysis(MARA) | |||
Revision as of 16:47, 21 May 2012
Assay pipeline
- Protocols:RNA_extraction
- Protocols:HeliScopeCAGE
- Protocols:Low_quantity_HeliScopeCAGE
- Protocols:SmallRNAseq
- Protocols:RNAseq
Computational Pipeline
- Protocols:rRNAdust
- Protocols:HeliScopeCAGE_read_alignment - delve, filtering (Q20 + percent identity), CTSS
- Protocols:RNAseq_read_alignment - TopHat, Cufflinks, (Trinity?), Cuffmerge
- Protocols:SmallRNAseq_read_alignment - BWA
Computational analysis
- Protocols:CAGE_peak_calling
- Protocols:GOstat_on_coexpression_cluster
- Protocols:GOstat_on_MARA_motif_target
- Protocols:Sample_enrichment_analysis_on_CAGE_peak_expression
- Protocols:Sample_enrichment_analysis_on_coexpression_cluster
- Protocols:Motif_Activity_Response_Analysis(MARA)
