How to install Perl modules manually, using CPAN command, and other quick ways
...l Perl modules using CPAN, make sure the cpan command is working. Following are the...AN module is not installed.# cpan-bash: cpan: command not found# perl -MCPAN -e she...)? [ask]Parameters for the 'perl Makefile.PL' command? []Parameters for the 'perl B...3970 days ago
3959 days ago
Taverna Workflow Management System
...rna Workbench(the desktop client application) and the Taverna Server (which allows remote execution of workflows). Taverna is also available as a Command Line Tool for a quick executi...3935 days ago
3673 days ago
Detect the sequence pattern and its location in fasta file with match and mismatches information.
This script is one of my old script to detect some centromeric pattern in chromosomes. User can also control the number of mismatches allowed through command line .. To run: perl centro.pl3887 days ago
3886 days ago
Bio++ : C Language libraries for your biological need
...rt text to any other type and vice versa, remove spaces, tokenize, switch between upper/lower case, etc.Applications: read options from a file or command lineetc. Some of the librari...3967 days ago
3721 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
...or, BMC Bioinformatics 11(Suppl 12):S1, 2010 Full Text Links to Linux command-line tutorials and resources...e Barnett's awk tutorial Greg Goebel's awk tutorial Executing an awk command from R to simplify data explo...3799 days ago
List of In-silico Binding Site Prediction Tools
...n pocket (cavity) detection algorithm based on Voronoi tessellation. It was developed in the C programming language and is currently available as command line driven program. A GUI is...3764 days ago
Linux operating system aimed at scientists
...Linux distribution is aimed at scientists and it comes with more than 250 bioinformatics packages, 50 graphical applications and several hundred command line tools. And this is just...3414 days ago
3325 days ago
Internship in Computational Biology
...rmal applications are due by Sunday 2nd December 2012. Requirements: This position requires a good understanding of genetic problems, a good command of at least one scripting lan...3551 days ago
JRF Bioinformatics at National Institute of High Security Animal Diseases (ICAR)
...ipline). Desirable : Exposure of working in research environment, Good command over written/spoken English a...ed areas. Desirable: Exposure of working in research environment, Good command over written/type written/spo...3315 days ago
3200 days ago
Bioinformatics 101 - Running BLAST
How to format the database for BLAST, run the command, view the output file, and use BioPerl and Perl to parse the output. By David Francis, Ohio State University. Delivered live at t...3916 days ago
3539 days ago
Download genome using NCBI esearch command line !
#Download using command line "NC_005956.1" / "CP003784.1" esearch -db nucleotide -query "NC_005956.1" | efetch -format fasta > seq1.fa esearch -db nucleotide -query "CP003...1121 days ago
R script to visualize fastANI core-genome comparison
...e comparison # Usage: Rscript # Output: .pdf # Uses genoPlotR package: http://genoplotr.r-forge.r-project.org #Parse command line arguments query_fasta=commandArgs(TRUE)[1] subject_fasta=c...1121 days ago
Comment on "Benchmarking Perl Module !"
...hmark module: Install the Benchmark module: If you don't already have the Benchmark module installed, you can install it using the following command: cpan Benchmark Write b...435 days ago
Comment on "Short-read assembly using Spades !"
...ic or FastQC. Running SPAdes: After quality control, the next step is to run SPAdes. This can be done through a command-line interface or a graphical user interface. The command for running SPAdes is usually...435 days ago