Results for "Command Line"
Blogs
How to install Perl modules manually, using CPAN command, and other quick ways
...sing CPAN, make sure the cpan command is working. Following are the...installed.# cpan-bash: cpan: command not found# perl -MCPAN -e she...rs for the 'perl Makefile.PL' command? []Parameters for the 'perl B...les installation (v1.9205)ReadLine support available (maybe inst...3951 days ago
Five points for bioinformatics software/tools
In the bioinformatics sector we mostly spend...at the program does. If you are so inclined, you can view all of the par...m and see the logical flow of the pipeline. In addition, open source mak...any conclusion. Even an error in two line code can alter your entire an...3708 days ago
- +27 more Blogs
Bookmarks
Taverna Workflow Management System
...a 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 execution of...3916 days ago
- ...iff* EdgeR* DESeq2 Advanced Command Line Tutorial Graphical Output wi...meRbund introduces some basic commands using the cummeRbund package...y variants in VCF format Pipelines are for those who are comfortable with using the UNIX command line; and often allow more...
3653 days ago
- +86 more Bookmarks
Files
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.pl3868 days ago
- Mostly FASTA file contain NNN characters, which can be replace by random A T G C character with this perl script. It also print the FASTA sequence name, N's counts, nucleotide count and percentage details at command prompt/standard output.
3867 days ago
- +1 more Files
Pages
Bio++ : C Language libraries for your biological need
..., correlation, information theory)Classes for matrices implementation.Linear algebra: eigen decomposition,...tween upper/lower case, etc.Applications: read options from a file or command lineetc. Some of the libraries ar...3948 days ago
- ...puter and visa-versa. I am jotting down some of the commonly used SCP command for your future help. Hope yo...o increase speed. This can be done by using option -c blowfish in the command line. $ scp -c b...
3702 days ago
- +14 more Pages
Top-level pages
List of Bioinformatics and Computational Biology Journals
Hi Bioinformatician and Computational Biologist, this is the comprehensive...informatics Applied Genomics and Proteomics BMC Bioinformatics Online Journal of Bioinformatics (OJB) PSB On-Line Proceedings Bioinformatics:...3728 days ago
Best book Titles for Learning Bionformatics
Nothing can add to our intellect more than reading a book....thing that we know today. There are several book, online and offile to read and I can'...oach, I.F. Tsigelny, 2002, International University Line Introduction to Protein Arch...3918 days ago
- +33 more Top-level pages
Wire posts
News
- Matthias Meyer and his team from the Max Planck Institute for Evolutionary Anthropolog...ia or mtDNA, a small part of the genome that is passed down along the maternal line and occurs in many copies per...
3782 days ago
Breaking chromosomes to study cancer !!!
Chromosomes are present in every cell of our body and they...ranslocations have been well studied in cancer cell lines which are associated with tw...l translocations for the first time in a human cell line and in primary cells. The stu...3580 days ago
- +3 more News
Opportunity posts
Bioinformatics PhD studentship available in New Zealand
Bioinformatics PhD studentship available in New Zealand...riptional control has been explored in a burgeoning line of research over several deca...have a BSc(Hons) or MSc degree in a relevant discipline and a willingness to learn an...3948 days ago
Ph.D. Fellowship (Computational Biology/Bioinformatics) : Cork, Ireland : Cork, Ireland
Ph.D. Fellowship (18,000 euro/pa, plus tuitio...have B.S. or M.S. degree in the disciplines such as Computer Science, St...the backgrounds in Life Science disciplines such as Bioinformatics, Comp...g of your application use the subject line: ‘Ph.D. computational’. All a...3916 days ago
- +22 more Opportunity posts
ResearchLabs posts
- Bioinformatics relevant research topics are: genomic scale studies endogenous mechanisms of mutations, germ line and somatic computational a...
3897 days ago
- The Bioinformatics Centre at BISR has created an infrastructure for providing faciliti...ties available at the Bioinformatics Centre extensively. The centre has leased line Internet connection as well l...
3225 days ago
Fun
Bioinformatician special skills !!
Bioinformatician and Computational biologist are the only programmers on Earth who can...?:\d+(?:\.\d*)?|\.\d+)(?:[eE]([+-]?\d+))?)/; next unless /((?:(?!\\$).)*)/; $line =~ /^(.+)(e|r)(.*)$/; /"(?:[...3896 days ago
- ...Why did bioinformatician always works on the command line? A: Because they don't want to...Why did bioinformatician prefer awk, PerlOneliner? A: Because even computer c...an; sleep; A: Ah, Ohhh, dude, these are *NIX commands Did they really...
3181 days ago
Video
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...3897 days ago
PHP Tutorial 1 - Introduction (PHP For Beginners)
In this tutorial we go over a short presentation on what PHP is, what is required to learn it and what we will be covering further down the line. This video will hopefully in...3650 days ago
- +1 more Video
Bio-Scripts
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 "CP003784...1102 days ago
R script to visualize fastANI core-genome comparison
...ome 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_fast...1102 days ago
- +104 more Bio-Scripts
Tags
Is there any quick way to check the installed Perl modules from Linux/Unix command line.
We always need to keep track of all the Perl modules, and install new one if required. Generally, whenever we run the Perl script it flash error message with the name of module not installed. I would like to know the quicker way to check the installed modules on any system/server.Tags: Unix, Linux, Perl, Modules, Command Line
3947 days ago
Comments
Comment on "Short-read assembly using Spades !"
...atic 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 usua...416 days ago
Comment on "Tools for Sequence translation !"
...n handle multiple sequences at once. EMBOSS Transeq: This is a command-line tool that can translate nucleoti...DNA or RNA sequences into protein sequences. SeqKit: This is a command-line tool that can perform several...421 days ago
- +8 more Comments
