Results for "Contig"
Blogs
String graph based genome assembly software and tools !
...rrors in the reads. The second phase assembles contigs from the corrected reads. Th.../or mate pair data to build scaffolds from the contigs. The output of this software...Such consensus sequences are then extended to contigs. BASE is a practically...2322 days ago
BBTools for bioinformatician !
...-reference-sequence level, so if a bacterial assembly has more than one contig, you may want to glue them to...e cases for generating a fake LMP library for scaffolding from a set of contigs. Read 1 will be from the lef...2264 days ago
- +2 more Blogs
Bookmarks
- Some of the useful bioinformatics scripts. For example ... contig-stats.pl is a Perl script that will automatically describe features of a sequence assembly. http://milkweedgenome.org/?q=scripts
3354 days ago
- HapSolo, that identifies secondary contigs and defines a primary assembly based on multiple pairwise contig alignment metrics. HapSolo ev...
1086 days ago
- +37 more Bookmarks
Files
- ...be/Tools/OPERA-LG_v2.0.6/bin//filter_conflicting_edge.pl pairedEdges_i0 contig_length.dat 100 2Illegal divis...on closed filehandle FILE at bin/OPERA-long-read.pl line 250.rm anchor_contig_info.dat contig_length.dat fi...
2145 days ago
Pages
Genome Assembly Tools and Software - PART2 !!
..., it is capable of assembling contigs together to form more comple...lds that order and orient the contigs. The updated version of RePS...C++ based tool for assembling contigs and/or scaffolds to full chr...ies novel transfrags with DNA contigs or genes of close related sp...2679 days ago
Top-level pages
Genome Assembly Tools and Software - PART1 !!
...[2] to extend seed reads (or contigs generated by another assembler) into longer contigs, by iteratively calling Vmat...for analyzing ABySS-assembled contigs from shotgun transcriptome d...rogram for sequence assembly, contig editing, and mutation detecti...2679 days ago
- ...duplicated lines: awk '!seen[$0]++' To sum assembly size from SPAdes contigs.fasta or scaffolds.fasta fil...le_1.fq) | cut -f 5-8 | \tr "\t" "\n" > myf2.fq To filter and sort contig identifiers from SPAdes assem...
2211 days ago
- +3 more Top-level pages
Wire posts
News
Phased Human Genome Assembly !
...ained in gapless sequence at least 27 Mb long. The primary contig assembly is 2.89 Gb long and consists of 865 contigs that were assembled with Pac...te: Blog post: Data Release: Highest-Quality, Most Contiguous Individual Human Genome A...2029 days ago
Bio-Scripts
Perl script to insert sequence in contig !!
# sub signature: #insertSEQintoCONTIGatLOC( SEQ , CONTIG , LOC ) ; sub insertSEQintoCONTIGatLOC{ my ( $SEQ , $CONTIG , $LOC ) = @_; substr( $CON...print 'insert = '.($s = insertSEQintoCONTIGatLOC( "CCCC ", $s , 26 ))."\n...2702 days ago
- bio
2463 days ago
- +9 more Bio-Scripts
Comments
Comment on "REAPR: a universal tool for genome assembly evaluation"
...to each other. The program will also break up contigs/scaffolds at spurious sites to form smaller (but hopefully correct) contigs. Reapr runs pretty slowly, s...the command is the potential problems with the contig names. If you run into any pr...1330 days ago
- ➜ mashmap-Linux64-v2.0 git:(master) ✗ ./mashmap -h-----------------Mashmap is an approximate long read or contig mapper based on Jaccardsimilarity-----------------Example usage:$ mash...
2116 days ago
- +2 more Comments
