Results for "Gaps"
Bookmarks
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
...hashing scheme is introduced. The resulting contigs are ordered and oriented using paired reads separated by ∼280 bp or ∼3.2 kbp, and many gaps between contigs can be closed...2399 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
...nded Smith-Waterman alignment algorithm to compute the final alignment. Ngmlr uses a convex gap cost model that penalizes gap extensions for longer gaps less than for shorter ones to...2230 days ago
- ...ad of using single-end reads to construct contig, PERGA uses paired-end reads and different read overlap sizes from O ≥ Omax to Omin to resolve the gaps and branches. Moreover, by co...
2189 days ago
- GMcloser uses likelihood-based classifiers calculated from the alignment statistics between scaffolds, contigs and paired-end reads to correctly assign contigs or long...
2183 days ago
Many-to-many pairwise alignments of two sequence sets
...eman-Wunsch alignment algorithm to find the optimum alignment (including gaps) of two sequences along their...m the scoring matrix, minus penalties arising from opening and extending gaps in the aligned sequences. The...2175 days ago
GAPPadder: A Sensitive Approach for Closing Gaps on Draft Genomes with Short Sequence Reads
...e this program in a publication, please cite the following reference:Chong Chu, Xin Li, and Yufeng Wu. "GAPPadder: A Sensitive Approach for Closing Gaps on Draft Genomes with Short S...2211 days ago
BLAST options, setting and defaults
...ault = blosum62 no default Supported and Suggested Values for Gap Open and Extension in BLASTP, BLASTX, TBLASTN, and TBLASTX Gaps OpenGap Extension 10 1...2001 days ago
gapFinisher: A reliable gap filling pipeline for SSPACE-LongRead scaffolder output
...mmand lines. They compare the performance of gapFinisher against two other published gap filling tools PBJelly and GMcloser. gapFinisher can fill gaps in draft genomes quickly and...1591 days ago
LR_Gapcloser: a tiling path-based gap closer that uses long reads to complete genome assembly
...tall bwa. LR_Gapcloser uses the alignments to find the bridging that cross the gap, and then fills the long read original sequence into the genomic gaps.1480 days ago
gapFinisher: A reliable gap filling pipeline for SSPACE-LongRead scaffolder output
gapFinisher to process SSPACE-LongRead output to fill gaps after the scaffolding. gapFinisher is based on the controlled use of a previously published gap filling tool FGAP and works on all standard Linux/UNIX command lines. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6733440/1480 days ago
- « Previous
- 1
- 2
- Next »
