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...2331 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...2273 days ago
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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...2688 days ago
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...2688 days ago
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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...2039 days ago
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...2711 days ago
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Whar are N50 and L50 of a contig assembly file? How to calculate it?
I am currently dealing with new contig assembly dataset, and bit confused about N50 and L50 stuff ....Tags: NGS, N50, L50, Contig, Assembly, Genome
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Tags: Blastn, BLAST, Nucleotide, Alignment, Database, NR, Contig, NGS
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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...1340 days ago
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