repeat-aware: Repeat aware scaffolding evaluation framework by Igor Mandric
...chains (called scaffolds). The join between two contigs A and B is considered correct if: Their relative orientation is correct Their relative order is correct The gap estimate...2280 days ago
DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications
...rithm, called DUPCAR, for reconstructing ancestral genomic orders with duplications. The method starts from the order of genes in modern genomes an...en a greedy algorithm is used to reconstruct the ancestral orders by connecting genes into con...2219 days ago
SOAP2 : Short Oligonucleotide Analysis Package 2
...in super fast and accurate alignment for huge amounts of short reads generated by Illumina/Solexa Genome Analyzer. Compared to soap v1, it is one order of magnitude faster. It requi...2217 days ago
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
...duced by the "comp". In addition, KAT contains a python script for analysing the mathematical distributions present in the K-mer spectra in order to determine how much content...2025 days ago
2083 days ago
CSBFinder: Discovery of colinear syntenic blocks across thousands of prokaryotic genomes
...axonomic distribution analysis of colinear syntenic blocks (CSBs) - groups of genes that are consistently located close to each other, in the same order, across a wide range of taxa....2063 days ago
RopeBWT2: Incremental construction of FM-index for DNA sequences
...namic FM-index. Nonetheless, ropeBWT2 is unique in that it may implicitlysort the input into reverse lexicographical order (RLO) or reverse-complement lexicographical order (RCLO) while building the ind...2063 days ago
Synima: a Synteny imaging tool for annotated genome assemblies
...e programs are included with the Synima package, and a pipeline for their use. Synima has a range of graphical parameters including size, colours, order, and labels, which are specif...2057 days ago
DISTRUCT: a program for the graphical display of population structure
...uman populations" Science 298: 2381-2385 (2002). Various options enable the user to control left-to-right printing order of populations, bottom-to-top printing order of clusers, colors, and other...1912 days ago
HumCFS: a database of fragile sites in human chromosomes
...knowledge of human CFS region as knowledge about CFS are unequally distributed in literature, which impose a problem in studying these region. In order to address these issues, we d...1884 days ago