Results for "Perl Script"
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Alignment-free sequence comparison tools available for next-generation sequencing data analysis
kallisto Transcript abundance quantification from RNA-seq...RNA-seq quantification at transcript-level (partitions the transcr...ds, draft genomes) Software (Perl) https://github.com/warrenlr/L...using d2S measure) of metatranscriptomic samples from NGS reads S...2383 days ago
Edit distance application in bioinformatics !
There are other popular measures of edit distance, which are calculated using a d...:Levenshtein::Damerau defaults to using a pure perl implementation, but if you've...edit distance. Text::Fuzzy::PP is a pure perl i...2353 days ago
Converting BLAST output into CSV
Suppose we wanted to do something with all this BLAST output. Generally,...he BLAST output in out.txt into a spreadsheet format, using a Python script. First, we need to get the script. We’ll do that using th...2349 days ago
Bioinformatics Web Application Development with Perl
...dash;were easy to create with Perl and CGI. Thanks to Perl's ubiquity as a language for...ools and techniques of modern Perl. See, for example, the ever-g...most mature of the modern top Perl web frameworks, yet it retain...ode. Because it builds on the Perl DBI, it scales everywhere from...2333 days ago
- There are several ways you can convert fastq to fasta sequences. Some...ed 's/@/>/'g | tr -s "/t" "/n" > OUTFILE.fasta EMBOSS:seqret Standard script that can be used for many pur...
2317 days ago
PerlOneLiner for Bioinformatician
FILE SPACING------------ # Double space a fileperl -pe '$\="\n"'perl -pe 'BEGIN { $\="\n" }'perl -...e numbers only non-empty linesperl -pe '$_ = "$. $_" if /./' #...ch a pattern (emulate grep -c)perl -lne '$a++ if /regex/; END {p...Time) and local computer timeperl -le 'print scalar gmtime'perl...2314 days ago
Python learning resources for bioinformatics and computational biologist !
Python is a general-purpose language, which means it can be used to build just about anything, which will be made...n-python and http://bioinformaticsonline.com/discussion/view/459/python-vs-perl...2267 days ago
Installing Bio::SCF perl module
Most Perl modules are written in Perl, some use XS (they...a somewhat recent version of Perl (version 5.8 or above). More about the basic perl module installation steps che...ar zxf Bio::SCF.tarcd Bio::SCFperl Makefile.PLmakemake testmake in...2230 days ago
LINKS scaffolder bloomfilter setting !
➜ bin git:(master) ✗ ls -l total 68 drwxrwxr-x 3 urbe urbe 4...t:(master) ✗ swig -Wall -c++ -perl5 BloomFilter.i ➜ bloomfilte...xx -I/home/urbe/anaconda3/lib/perl5/5.22.0/x86_64-linux-thread-m...xx -I/home/urbe/anaconda3/lib/perl5/5.22.0/x86_64-linux-thread-m...and -s. ERROR fixed perl:...2163 days ago
Parallel Processing with Perl !
Here is a small tutorial on how to make best use of multiple processors for bioinformatics analysis. One best way is using perl threads and forks. Knowing ho...Here is a very simple and efficient technique with perl w...2092 days ago
