shenzy@shenzy-ubuntu:/usr/local/lib/perl/5.10.1/MicrobeDB/scripts$ load_genome.pl -d /home/shenzy/Downloads/unpublished_genomes/Pseudomonas_aeruginosa_LESB58/ 2012/05/15 16:01:48> Working on /home/shenzy/Downloads/unpublished_genomes/Pseudomonas_aeruginosa_LESB58/ 2012/05/15 16:01:48> Parsing file: /home/shenzy/Downloads/unpublished_genomes/Pseudomonas_aeruginosa_LESB58/Pseudomonas_aeruginoas_LESB58.gbk 2012/05/15 16:01:48> Can’t find file:/home/shenzy/Downloads/unpublished_genomes/NCBI_completegenomes.txt . GenomeProject table will not contain much organism information. 2012/05/15 16:01:48> Can’t find file:/home/shenzy/Downloads/unpublished_genomes/NCBI_completegenomes.txt . GenomeProject table will be missing a few fields of information. DBD::mysql::st execute failed: Unknown column ‘distance_calculated’ in ‘field list’ at […]
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Starting from a Shell Script In this tutorial we will develop a Bpipe pipeline script for a realistic (but simplified) analysis pipeline used for variant calling on NGS data. In this pipeline the following stages are executed: sequence alignment using bwa sorting and indexing output files using samtools PCR duplicate removal using Picard calling variants […] Summary: Next generation sequencing (NGS) techniques have been widely used to document the small RNAs implicated in a variety of biological, physiological and pathological processes. An integrated computational tool is needed for handling and analyzing the enormous data sets from small RNA deep sequencing approach. Here we present a novel web server, CPSS (A […] |
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