Sibelia: A comparative genomics tool
Sibelia: A comparative genomics tool: It assists biologis...belia will also be helpful for the evolutionary and genome rearrangement studies for mul...d regions, (2) regions that present in one group of genomes but not in others, (3) rearr...1416 days ago
chromatiblock: Scalable, whole-genome visualisation of structural changes in prokaryotes
To create a fresh environment for chromatiblock to run in do: conda create --name chromatiblock conda activate chromatiblock conda install chromatiblock --channel co...1415 days ago
parallelLastz: Lastz with multi-threads support.
...early, 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 program is an...1416 days ago
1350 days ago
1350 days ago
URMAP, an ultra-fast read mapper
URMAP, a new read mapping algorithm. URMAP is an order of magnitude faster than BWA with comparable accuracy on several validation tests. On a Genome in a Bottle (GIAB) variant ca...1347 days ago
Liftoff: An accurate GFF3/GTF lift over pipeline
Liftoff is a tool that accurately maps annotations in GFF...input, Liftoff is a standalone tool that takes two genome assemblies and a reference an...on as input and outputs an annotation of the target genome.1296 days ago
SneakySnake: A Fast and Accurate Universal Genome Pre-Alignment Filter for CPUs, GPUs, and FPGAs
The first and the only pre-alignment filtering algorithm that works efficiently and fast on modern CPU, FPGA, and GPU architectures. SneakySnake greatly (by more than t...1296 days ago
maftools : Summarize, Analyze and Visualize MAF Files
With advances in Cancer Genomics, Mutation Annotation Format (MAF) is bein...g widely accepted and used to store somatic variants detected. The Cancer Genome Atlas Project has sequen...1293 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 most complex geno...1292 days ago