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Counts NGS read alignments against GTF annotations in a multithreaded and scalable fashion.
Benchmark: 8 core 1M annotations for 2Gb sorted reads ~30 seconds compared to ~28 minutes for bedtools multicov.
Files include:
fast_count_multi - reports all counts and RPKM, multithreading support
fast_count_deseq - reports gene counts in deseq compatible format, multithreading support
fast_count - reports all counts with no multithreading support.
usage
./fast_count_multi...
It's a very light Redhat Linux and Oracle OVM System Performance Monitoring tool written in Perl using rrdtool for Database and Graphing. Allows you to query the RRD database given a set of dates and generates a web based graphs. Easy to install. Uses less disk space than most performance monitoring tool. Data of each host monitored is kept for 2 years and occupy less that 25 MB of disk space.