Results for "repeat"
Top-level pages
Useful Publications and Websites for Deep Sequencing Data Analysis
...ing errors in a mixed set of reads. Salmela, Bioinformatics 26(10):1284, 2010. Full Text [includes error correction of SOLiD reads in colorspace] Repeat-aware modeling and correction...3836 days ago
Commercial and public next-gen-seq (NGS) software
...a) back to a genome of any size. It seeks to align reads from nonunique repeats using statistics. From autho...fficient suffix tree library, seed-and-extend alignment, SNP detection, repeat detection, and visualization...3575 days ago
Software packages for next gen sequence analysis
...a) back to a genome of any size. It seeks to align reads from nonunique repeats using statistics. From autho...fficient suffix tree library, seed-and-extend alignment, SNP detection, repeat detection, and visualization...3299 days ago
Tools for Searching Repeats And Palindromic Sequences
...into five categories: Simple Repeats - Duplications of simple set...such as A, CA, CGG etc.Tandem Repeats - Typically found at the cen...in the formation of inverted repeats. Assisted by high speed comp...inversions that form inverted repeats that compliment each other....2268 days ago
Genome Assembly Tools and Software - PART1 !!
...enovo – A tool to Construct Repeats directly from Raw Reads...novo is designed for constructing repeats directly from sequence reads...semble virus genomes that have no repeat sequences, using Illumina rea...nt. FinisherSC 2.0 – A Repeat-aware tool for upgrading de-n...2742 days ago
- ...'as', 'k<int>', 'mc') --disable-gzip-output forces error correction not to compress the corrected reads --disable-rr disables repeat resolution stage of assemblin...
2407 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
...omes at once, and determine which genome they match best. This is different than with ordinary mapping. If a genome (say, human) contains an exact repeat somewhere, reads mapping to i...2371 days ago
PerlOneLiner for Bioinformatician
...# Create a string of specific lengthperl -le 'print "a"x50' # Create a repeated list of elementsperl -le '@...the second lineperl -ne 'print if $. % 2 == 0' # Print all lines that repeatperl -ne 'print if ++$a{$_} ==...2358 days ago
Computational resources for TE discovery and TE detection
...fo.lifl.fr/mreps/ PILER http://www.drive5.com/piler/ PLOTREP http://repeats.abc.hu/cgi-bin/plotrep.pl RepBase http://www.girinst.org/ RepeatFinder http://cbcb.umd.edu/sof...2330 days ago
Gap filling or Contigs extensions tools !
...mbly C0 of the contigs you have identified as overlapping your region of interest, and the set S of reads those contigs contain. Let C = C0. 2. Repeat: a. Identify paired-end read...2221 days ago
