How to install Perl modules manually, using CPAN command, and other quick ways
As a bioinformatics programmer, and crunchy data analyser you need to insta...odules using CPAN, make sure the cpan command is working. Following are the...e is not installed.# cpan-bash: cpan: command not found# perl -MCPAN -e she...Parameters for the 'perl Makefile.PL' comma...3913 days ago
3903 days ago
Taverna Workflow Management System
Taverna is an open source domain independent Workflow Management System – a suite of tools used to design and...r (which allows remote execution of workflows). Taverna is also available as a Comma...3879 days ago
3616 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.pl3831 days ago
3829 days ago
Bio++ : C Language libraries for your biological need
C has always been a language that never attempts to tie a programmer down - it allows for easy implementation, it co...switch between upper/lower case, etc.Applications: read options from a file or comma...3911 days ago
BioRuby :Ruby packages for biologist
BioRuby is a package of Open Source Ruby code, with classes for DNA and protein...and is still in progress. Currently, there are over 80 files and 15,000 lines (except comment-only lines) in our source code. This mig...3910 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
Global overview papers Next generation quantitative genetics in plants. Jiménez-...cs 11(Suppl 12):S1, 2010 Full Text Links to Linux command-line tutorials and resources...rial Greg Goebel's awk tutorial Executing an awk comma...3742 days ago
List of In-silico Binding Site Prediction Tools
Following are the list of In-silico Binding Site Prediction in Proteins tools CASTp : http://sts.bioengr.uic.edu/ca.... It was developed in the C programming language and is currently available as comma...3707 days ago
RNA-Seq Data Pathway and Gene-set Analysis Workflows
It describe the GAGE (Luo et al., 2009) /Pahview (Luo and Brouwer, 2013) workflows on&...nting, data preprocessing, gene set test, to pathway visualization in about 40 lines of codes. The same workflow c...3796 days ago
3684 days ago
3842 days ago
Bioinformatics @ TATA MEMORIAL CENTRE, NAVI MUMBAI
TATA MEMORIAL CENTRE ADVANCED CENTRE FOR TREATMENT, RESEARCH AND EDUCATION IN CANCER...e kinase shRNA libraries in head and neck squamous call carcinoma (HNSCC) cell lines DBT A/C No. 3071, Dr. Amit D...3805 days ago
3143 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 l...3860 days ago
3483 days ago
2107 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 -que...1064 days ago
Linux for bioinformatician !!!
Linux, free operating system for computers, provides several powerful admin tools and utilities which will help you to manage your systems effectively and handle huge amount of genomic/biological data with an ease. The field of bioinformatics relies heavily on Linux-based computers and software. ...Tags: Bioinformatics, Computational Biology, Linux, Tools, Commands, Command lines
3668 days ago
Comment on "Sibelia: A comparative genomics tool"
...n "Directory for temporary files"). Above commands will run "Sibelia" on the fi...ermutations of the synteny block. It has two lines for each input sequence: 1....ijn grahp for k=25, one can use the following command line: Sibelia -k run.st...1248 days ago
1483 days ago