:: DESCRIPTION
CAGEScan-Clustering creates transcript assemblies from CAGEScan derived Transcription Start Site (TSS) associated reads paired with randomly primed readsm, grouping them on the basis of the common location of TSS reads.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
RECLU is a reproducible clustering pipeline with multiple scales using capped analysis of gene expression (CAGE). This program discoveries numerous alternative transcription start sites (TSSs) with the biological implication for your sample.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Genomics. 2014 Apr 25;15(1):269. doi: 10.1186/1471-2164-15-269.
RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (CAGE).
Ohmiya H, Vitezic M, Frith MC, Itoh M, Carninci P, Forrest AR, Hayashizaki Y, Lassmann T1; FANTOM Consortium.
:: DESCRIPTION
CAGEr is an R implementation of novel methods for the analysis of differential TSS usage and promoter dynamics, integrated with CAGE data processing and promoterome mining into a first comprehensive CAGE toolbox on a common analysis platform.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
CAGEr: precise TSS data retrieval and high-resolution promoterome mining for integrative analyses.
Haberle V, Forrest AR, Hayashizaki Y, Carninci P, Lenhard B.
Nucleic Acids Res. 2015 Feb 4. pii: gkv054.
