Seal: SEquence ALignment evaluation suite
Seal is a comprehensive sequencing simulation and alignment tool evaluation suite. This software (implem...ons in the genome based on input parameters of read length, coverage, sequencing error rate, and indel rate....2366 days ago
Jabba: Hybrid Error Correction for Long Sequencing Reads
Jabba is a hybrid error correction tool to correct third generation (PacBio / ONT) sequencing data, using second generation...2033 days ago
LRCstats: Long Read Correction Statistics
LRCstats is an open-source pipeline for ben...reads outputted by third generation sequencing technology such as machines p...reads produced by third generation sequencing technology, as the name sugge...reads outputted by next generation sequencing technologies to correct long...2364 days ago
2336 days ago
UCSC SARS-CoV-2 Genome Browser
The UCSC SARS-CoV-2 Genome Browser (https://genome.ucsc.edu/covid19.html) is an adapt...ncluding conservation with similar viruses, immune epitopes, RT–PCR and sequencing primers and CRISPR guides. We...901 days ago
Reference-free prediction of rearrangement breakpoint reads
lideSort-BPR ( b reak p oint r eads) is based on a fast...analyses of the number of neighboring reads. When applied to a dataset with a sequencing depth of 100×, it finds...2302 days ago
SciLifeLab tutorial for bioinformatics analysis !
SciLifeLab is a national center for molecular biosciences with focus on health and en...Life Scientists 2016 November - Uppsala2017 Mars - Uppsala Single cell RNA sequencing analysis 2017 October - Upps...2262 days ago
2259 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
CoNvex Gap-cost alignMents for Long Reads (ngmlr) is a long-read mapper designed to s...ompute precise alignments. The gap model allows ngmlr to account for both the sequencing error and real genomic variat...2253 days ago
ALPACA: A hybrid strategy for assembly of genomic DNA shotgun sequencing reads.
ALPACA requires Celera Assembler 8.3 or later. It is recommended to build Celera Assembler from source. (Why? The pre-built binaries CA_8.3rc1 and CA8.3rc2 will work for any large data set. Detail paper at https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-017-3927-82249 days ago