Seal: SEquence ALignment evaluation suite
Seal is a comprehensive sequencing simulation and al...epeat length, repeat variability rate). Simulating reads from random locations in the...te. Applying alignment tools to the genome and the reads through a standardized interf...2342 days ago
Jabba: Hybrid Error Correction for Long Sequencing Reads
Jabba is a hybrid error correction tool to correct third...mat. These sequences will be corrected (e.g. PacBio reads). The corrections will be wri...a file in fasta format with corrections of the long reads, and additionally a file in t...2009 days ago
LRCstats: Long Read Correction Statistics
LRCstats is an open-source pipeline...orrection algorithms for long reads outputted by third generation...d by Pacific Biosciences. The reads produced by third generation...ed by Illumina. However, long reads are plagued by high error rat...rection algorithms using long reads produced by simulators (such...2340 days ago
proovread : large-scale high-accuracy PacBio correction through iterative short read consensus
proovread : large-scale high-accuracy PacBio correction through iterative short read...00-500bp) Unitigs 454, ... proovread maps high coverage data to pacbio reads (bwa mem, blasr, daligner) in...2340 days ago
AliTV—interactive visualization of whole genome comparisons
AliTV, which provides interactive visualization of whole genome alignments. AliTV reads multiple whole genome alignme...2334 days ago
2312 days ago
Carefully opt for human reference genome
Heng Li posted several issues with the human reference genomes given in these resourc...ressed FASTA file to be used as hg38/GRCh38 human reference genome. if you map reads to GRCh38 or hg38, use the fo...1565 days ago
ARCS: scaffolding genome drafts with linked reads
ARCS, an application that utilizes the barcoding information contained in linked reads to further organize draft gen...2279 days ago
Multi-CAR: a tool of contig scaffolding using multiple references
we design a simple heuristic method to further revise our single reference-based scaf...relationships among the draft and reference genomes and libraries of paired-end reads. To validate Multi-CAR, we ha...2279 days ago
Reference-free prediction of rearrangement breakpoint reads
lideSort-BPR ( b reak p oin...for all-against-all comparisons of short reads and theoretical analyses of the number of neighboring reads. When applied to a dataset wi...es, and yet produces fewer false-positive reads. To our knowledge, this is th...2278 days ago