miniasm: very fast OLC-based de novo assembler for noisy long reads
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It t..., including reads overlapping, in ~10 minutes with 16 CPUs. The total assembly size is 105Mb; the N50 is 1.94Mb....2351 days ago
2349 days ago
2338 days ago
HTTDB - Horizontally transferred transposable elements database
Transposons or Transposable elements (TEs) are "mobile genes" capable of mobilization from one genomic location to an...zation events which is characterized by the stable integration a viral genomic frag...2294 days ago
MUMmer4: A fast and versatile genome alignment system
MUMmer4, a substantially improved version of MUMmer that addresses genome size constraints by changing the 3...ry sequences. With a theoretical limit on the input size of 141Tbp, MUMmer4 can now wo...2283 days ago
2271 days ago
ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
ETE v3, featuring numerous improvements in the underlying library of methods, and provi...evolutionary models, (iii) calculating distances between trees of different size or including duplications, an...2267 days ago
PRICE (Paired-Read Iterative Contig Extension), a de novo genome assembler implemented in C++.
We are pleased to release PRICE (Paired-Read Iterative Contig Extension), a de novo gen...enome assembly: PRICE uses paired-read information to iteratively increase the size of existing contigs. Initiall...2155 days ago
BEAP: Blast Extension and Assembly Program
The Blast Extension and Assembly Program (BEAP) is a computer program that uses a short starting DNA frag...2155 days ago
RestrictionDigest: A powerful Perl module for simulating genomic restriction digests
RestrictionDigest can simulate the reference genome digestion and generate comprehensiv...mulation. It can simulate single-enzyme digestion, double-enzyme digestion and size selection process. It can als...2154 days ago