MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads
MECAT is an ultra-fast Mapping, Error Correction and de novo Assembly Tools for single molecula sequencing (SMRT) reads. MECAT employs novel alignment and error corre...2248 days ago
LACHESIS: Genome Assembly with Hi-C-based Contact Probability Maps (LACHESIS)
...documentation and a user's guide are available at: http://shendurelab.github.io/LACHESIS. Manuscript describing LACHESIS was published as: Burton JN#, Adey A, Patwardhan RP, Qiu R, Kitzman JO, S...2245 days ago
fragScaff: Genome Assembly with Contiguity Preserving Transposition
...enced long fragments ranging from 5 kilobases to >1 megabase. This software, fragScaff, leverages coinc...ourceforge.net/projects/fragscaff/files. Manuscript describing fragScaff was published as: Adey A, Kitzma...2245 days ago
GAPPadder: A Sensitive Approach for Closing Gaps on Draft Genomes with Short Sequence Reads
This software is provided ``as is” without warranty of any kind. In no event shall the author be held responsible for any damage resulting from the use of this software. The program package, inclu...2245 days ago
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DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications
...lgorithm is used to reconstruct the ancestral orders by connecting genes into contiguous regions based on predicted adjacencies. Computer simulation was used to validate the algorit...2238 days ago
SOAP2 : Short Oligonucleotide Analysis Package 2
...s Package). It is an updated version of SOAP software for short oligonucleotide a...re algorithms and the indexing data structures (2way-BWT) are developed by the al...of Hong Kong (T.W. Lam, Alan Tam, Simon Wong, Edward Wu and S.M. Yiu)....2236 days ago
minialign: fast and accurate alignment tool for PacBio and Nanopore long reads
Minialign is a little bit fast and moderately accurate nucleotide sequence alignment tool designed for PacBio and Nanopore long reads. It is built on three key algorithms, minimizer-based index of the minimap overlapper, array-based seed chaining, and SIMD-parallel Smith-Waterman-Gotoh extension.2235 days ago