Gap filling or Contigs extensions tools !
There are many tools to perform gap filling using Illumina short reads, for example "GapFiller: a de novo assembly approach to fill the gap within paired reads" or "Toward almost closed genomes with GapFiller". There are also some tools like GAPresolution that can help to perform local re-assembl...Tags: Gap, filling, Contigs, extensions, tools
2170 days ago
Tags: PERGA, Paired-End, Read, Guided, De Novo, Assembler, Extending, Contigs, SVM, Look, Ahead, Approach, assembly
2166 days ago
BEAP: Blast Extension and Assembly Program
The Blast Extension and Assembly Program (BEAP) is a computer program that uses a short starting DNA fragment, often a EST or partial gene segment, as "primer", to recursively blast nucleotide databases in an attempt to obtain all sequences that overlaps, directly or indirectly, with the "primer"...Tags: BEAP, Blast, Extension, Assembly, Program, Extend, Contigs, Sequence
2160 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC: Fast and accurate reference-guided scaffolding of draft genomes. bioRxiv 2019. RaGOO is a tool for coalescing genome assembly contigs into pseudochromosomes via minimap2 alignments to a close...Tags: RaGOO, Fast, Reference-Guided, Scaffolding, Genome, Assembly, Contigs
1849 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC: Fast and accurate reference-guided scaffolding of draft genomes. bioRxiv 2019. RaGOO is a tool for coalescing genome assembly contigs into pseudochromosomes via minimap2 alignments to a close...Tags: RaGOO, Fast, Reference, Guided, Scaffolding, Genome, Assembly, Contigs, NGS
1657 days ago
UniqueKmer: Generate unique KMERs for every contig in a FASTA file
Generate unique k-mers for every contig in a FASTA file. Unique k-mer is consisted of k-mer keys (i.e. ATCGATCCTTAAGG) that are only presented in one contig, but not presented in any other contigs (for both forward and reverse strands). This tool accepts the input of a FASTA file consisting of ...Tags: Unique, Kmer, Mers, Contigs, FASTA, Genome
875 days ago