Scallop: reference-based transcriptome assembler for RNA-seq
...eplyaka for the interview). It is available at both the bioinformatics chat and iTunes. https://github.com/Kingsford-Group/scallop2247 days ago
Metassembler: merging and optimizing de novo genome assemblies
...mplementary, if untapped, strengths and weaknesses. We present our metassembler algorithm that merges multiple assemblies of a genome into a single superior sequence.2247 days ago
MIX: Combining multiple assemblies from NGS data
...ool that combines two or more draft assemblies, without relying on a reference genome and has the goal to reduce contig fragmentation and thus speed-up genome finishing. The propose...2247 days ago
Digest: In silico restriction digest of complete genomes
This tool allows to retrieve number of cleavages yielded by commercially available endonucleases in up-to-date sequenced prokaryotic genomes. When the number of fragments is bellow...2241 days ago
fragScaff: Genome Assembly with Contiguity Preserving Transposition
...ource of contiguity information for scaffolding de novo genome assemblies. FragScaff is complementary to Lachesis, providing midrange contiguity to support robust, accurate chromoso...2241 days ago
2240 days ago
DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications
we propose a heuristic algorithm, called DUPCAR, for reconstructing ancestral genomic orders with duplications. The method starts from the order of genes in modern genomes and predicts predecessor and successo...2234 days ago
SOAP2 : Short Oligonucleotide Analysis Package 2
...hort Oligonucleotide Analysis Package). It is an updated version of SOAP software...cleotide alignment. The new program features in super fast and accurate alignment...kable improvement of SOAPaligner is that it now supports a wide range of the read...2232 days ago
WhatsHap: fast and accurate read-based phasing
...of Related Individuals). WhatsHap is easy to install It is easy to use: Pass in a VCF and one or more BAM files, get out a phased VCF. Supports multi-sample VCFs. It p...2227 days ago
Porechop: tool for finding and removing adapters from Oxford Nanopore reads
...and chopped into separate reads. Porechop performs thorough alignments to effectively find adapters, even at low sequence identity. Porechop also supports demultiplexing of Nanopo...2226 days ago