Results for "pe"
Top-level pages
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
...nt transcript clusters; uses sig-mers, a special type of k-mers) Software (C+...ion NGS data (can distinguish patients’ specific mutations; algorithm use...et/projects/ksnp/files/ NGS-MC Phylogeny of species based on NGS reads using...2425 days ago
- ...runs plasmidSPAdes pipeline for plasmid detection --...t; file with unpaired reads --pe<#>-12 <filename...file with untrusted contigs Pipeline options: --only-error-co...not the correction algorithm (for speed) read 1 and read 2 of the...
2405 days ago
Single Cell RNAseq data analysis tutorial !!
... samples of the same tissue from different species Useful for quantifying e...ub.com/nghiavtr/BPSC Sincera: A Computational Pipeline for Single Cell RNA-Seq P...fy human islet cell signatures and reveal cell-type-specific expression changes i...2405 days ago
- ...ariety of applications, but no single analysis pipeline can be used in all cases....ajor steps in RNA-seq data analysis, including experimental design, quality contr...and transcript expression analysis of RNA-seq experiments with TopHat and Cuffli...
2405 days ago
Edit distance application in bioinformatics !
...culated using a different set of allowable edit operations. For instance, the&...venshtein::Damerau defaults to using a pure perl implementation, but if you'...in, but applies different weights to each edit type. Text::Brew is an imple...2395 days ago
Converting BLAST output into CSV
...ase - you want to retrieve all matches, or do a reciprocal BLAST, or something. As with most programs that run on UNIX, the text output is in some specific format. If the program i...2391 days ago
Tools for bacterial whole genome annotation
...ool, takes just a few minutes per genome. This is the bes...okaryotic Genome Annotation Pipeline is designed to annotate b...Genome Automatic Annotation Pipeline (PGAAP; see Pubmed A...figurable genome annotation pipeline. MAKER allows smaller euk...2386 days ago
Run miniasm assembler on nanopore reads !
...read sequences to generate the final unitig sequences. Thus the per-base error rate is similar to the raw input reads. Find the detail of the reads repeats: fq2fa ONT_A.fastq ONT_...2384 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 fo...ng a subroutine are gone. The Perl world has seen the value of...as fun to develop. A modern Perl web developer should be fam...emit a PDF, you're in luck. Perl's prowess as a general purp...2376 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
...genome (say, human) contains an exact repeat somewhere, reads mapping to it will be mapped ambiguously. But if you want...he reads into multiple output files, one per reference. BBSplit can only...none of them, one of them, or put in a special "ambiguous" file for each...2369 days ago
