Results for "Paired end sequencing"
Top-level pages
Quick next generation sequencing (NGS) terms definition
fragment size: the Illumina WGS protocol generates paired-end reads from both ends of longer fragments. The leng...ants, mapping locations of the paired ends span within an interval [&de...δmax]. Most (>90%) of paired-end reads are sampled from...and2, (b) the distance between ends is be...2536 days ago
Awesome perl frameworks, libraries and software - PART 1
...e Facebook Graph API. lhost/sendxmpp - perl-script to sen...u - HTML Form Creation, Rendering and Validation Framework...utilities for Next-Generation Sequencing (NGS) data analysis masukomi...Framework for High Throughput Sequencing analysis gbarr/perl-libnet&n...2503 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
...ne k-mers profiles of the RNA-seq paired-end reads Software (Java) https...enomeTester4/ Phy-Mer Reference-independent mitochondrial haplogroup c...ror correction Lighter Correction of sequencing errors in raw, whole genome sequencing reads (k-mer based) Software...2385 days ago
- When you have both Illumina and Nanopore data, then SPAdes remains a good o...le with interlaced forward and reverse paired-end reads -1 <filename> file with forward paired-end reads -2 <filename&g...<filename> file with unpaired rea...
2365 days ago
Single Cell RNAseq data analysis tutorial !!
A major breakthrough (replaced microarrays) in the late 00’s and has been...biorxiv.org/content/early/2016/09/02/036558 Citrus: A toolkit for single cell sequencing analysis http://biorxiv.org/...2364 days ago
- RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis pipeline can be used in all cases. We review all of the major steps in RNA-seq data anal...
2364 days ago
Tools for bacterial whole genome annotation
RAST – Web tool (upload contigs), uses the subsystems in t.... NCBI's annotation pipeline depends on several internal database...annotations of single genomes. The extended annotation assigns putative...of gaps between them; (ii) IMAGE uses paired-end...2345 days ago
Bioinformatics Web Application Development with Perl
Perl's second wave of adoption came from the growth of the wo...t interfaces and powerful backends. Perl is still well suited...s and web applications of tremendous value with all three. Thes...I by itself isn't the be-all, end-all of data storage and acces...rs to use mod_perl as the backend are av...2335 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
BBSplit internally uses BBMap to map reads to multiple genomes at once, and deter...a special "ambiguous" file for each of them. Paired reads will always be kept tog...s case, "int=t" means that the input file is paired and interleaved. For single-end reads...2328 days ago
PerlOneLiner for Bioinformatician
FILE SPACING------------ # Double space a fileperl -pe '$\="\n...ile (emulate wc -l)perl -lne 'END { print $. }'perl -le 'print...fileperl -lne '$a++ if /^$/; END {print $a+0}'perl -le 'print...ll linesperl -alne '$t += @F; END { print $t}' # Print the tot...espace (space, tabs) from the end of eac...2316 days ago
