U-Plot: Genome U-Plot sample implementation
The Genome U-Plot is a JavaScript tool to visualize Chromosomal abnormalities in the Human Genome using a U-shape layout.1537 days ago
HS3D: Homo Sapiens Splice Sites Dataset
...roaches for gene identification and characterization. From the complete GenBank (Primate Sequences Division) Rel.123 (162,557 entries), entries of Human Nuclear DNA including Complet...1436 days ago
Supernova: generates phased, whole-genome de novo assemblies from a Chromium-prepared library.
...commended range.• Note that at most 2.14 billion reads are allowed.• Please note that we have not extensively tested genomes larger than human, and any genome above approxi...1448 days ago
parallelLastz: Lastz with multi-threads support.
...time linearly, and use almost equal memory as the original lastz program. This is useful when you lastz a big query file to a huge reference like human whole genome sequence. The p...1365 days ago
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
Hifiasm is a fast haplotype-resolved de novo assembler for PacBio Hifi reads. It can assemble a human genome in several hours and works with the California redwood genome, one of the...1241 days ago
IVA: accurate de novo assembly of RNA virus genomes
...d specifically for read pairs sequenced at highly variable depth from RNA virus samples. We tested IVA on datasets from 140 sequenced samples from human immunodeficiency virus-1 or i...1060 days ago
Calling variants in non-diploid systems
...encing noise (abundant in all NGS platforms) and true low frequency variants. Some of the early attempts to do this well have been accomplished on human mitochondrial DNA a...1056 days ago
975 days ago
WAAFLE: a Workflow to Annotate Assemblies and Find LGT Events.
Lateral gene transfer (LGT) is an important mechanism for genome diversification in microbial communities, including the human microbiome. While methods exist to identify LGTs from s...967 days ago
Peregrine & SHIMMER Genome Assembly Toolkit
Peregrine is a fast genome assembler for accurate long reads (length > 10kb, accuracy > 99%). It can assemble a human genome from 30x reads within 20 cpu hours from reads to po...884 days ago