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....2342 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 (Illumina) data. Input Jabba takes as input a concatenated...2009 days ago
LRCstats: Long Read Correction Statistics
...for long reads outputted by third generation sequencing technology such as machines p...nces. The reads produced by third generation sequencing technology, as the name sugge...te, short reads outputted by next generation sequencing technologies to correct long...2340 days ago
2312 days ago
UCSC SARS-CoV-2 Genome Browser
...r this virus, containing many annotation tracks and new features, including conservation with similar viruses, immune epitopes, RT–PCR and sequencing primers and CRISPR guides. We...878 days ago
Reference-free prediction of rearrangement breakpoint reads
...thm for all-against-all comparisons of short reads and theoretical analyses of the number of neighboring reads. When applied to a dataset with a sequencing depth of 100×, it finds...2278 days ago
SciLifeLab tutorial for bioinformatics analysis !
...7 November - UppsalaRNAseq tutorials R Programming Foundations for Life Scientists 2016 November - Uppsala2017 Mars - Uppsala Single cell RNA sequencing analysis 2017 October - Upps...2238 days ago
2236 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
...izes gap extensions for longer gaps less than for shorter ones to compute precise alignments. The gap model allows ngmlr to account for both the sequencing error and real genomic variat...2230 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/s12864-017-3927-82225 days ago