Software packages for next gen sequence analysis
...rcial. Win or MacOS. * SeqMan Genome Analyser - Software for Next...f Nucleotide Databases. Whole genome alignments to a reference gen...mina) back to a genome of any size. It seeks to align reads from n...na reads to a FASTA reference genome. By Andrew D. Smith and Zheny...3247 days ago
Comprehensive list of visualization tools for biological pathways
The study of biological pathways is a key to understand the different processes inside a cell: proteins exer....kazusa.or.jp/ KEGG Atlas Interactive Kyoto Encyclopedia of Genes and Genomes pathways http://www.geno...2292 days ago
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List of Bioinformatics Software Tools for Next Generation Sequencing
Commercial tools Strand NGS offers many different tools incl...d text files Supports custom genome builds and annotation databas...gzipped or not; no reference genome required; read pairs can be g...SnpEff Input: BAM Reference Genome: FASTA indexed with SAMtools...alf, CNV file -cnv Reference geno...2913 days ago
Tools for Searching Repeats And Palindromic Sequences
What are genomic interspersed repeats? In the mid 1960's scientists discovered that many genomes contain stretches of highly repetitive D...have been copied to another region of the genome.Interspersed RepeatsProcessed...nes which have been reintegrated into the geno...2216 days ago
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Genome Assembly Tools and Software - PART1 !!
...reported for the assembly of genomes while the others are designed aiming at handling complex genomes. TriMetAss 1.2 – Th...alable and fully parallelized Genome Assembler There is a growi...er designed to assemble virus genomes that have no repeat sequence...2690 days ago
Perl Special Vars Quick Reference
$_ The default or implicit variable. @_ Subroutine parameters. $a$b sort comparison routine variables. @ARGV The command-line args....2649 days ago
Quick next generation sequencing (NGS) terms definition
fragment size: the Illumina WGS protocol generates paired-end...gions, therefore the fragment size distribution can be learned emp...and maximum expected fragment size.discordant reads: briefl...ly be mapped to the reference genome by breaking into two sub-re...2527 days ago