Difference between revisions of "TGICL"

Latest revision as of 20:47, 12 August 2022

Description

TGI Clustering tools (TGICL): a software system for fast clustering of large EST datasets

This package automates clustering and assembly of a large EST/mRNA dataset. The clustering is performed by a slightly modified version of NCBI's megablast , and the resulting clusters are then assembled using CAP3 assembly program. TGICL starts with a large multi-FASTA file (and an optional peer quality values file) and outputs the assembly files as produced by CAP3

Environment Modules

Run module spider tgicl to find out what environment modules are available for this application.

System Variables

HPC_TGICL_DIR - installation directory
HPC_TGICL_BIN - executable directory
HPC_TGICL_CONF - conf directory

Additional Information

To copy the default skeleton configuration file to the working directory:

cp $HPC_TGICL_CONF/tgicl.cfg .

Sample run

launch_tgicl tgicl -F sample.fasta  -q sample.qual -c 4

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-[[Category:Software]][[Category:biology]][[Category:bioinformatics]][[Category:NGS]][[Category:sequencing]]
+[[Category:Software]][[Category:biology]][[Category:NGS]][[Category:sequencing]]
 {|<!--CONFIGURATION: REQUIRED-->
 |{{#vardefine:app|tgicl}}