Results for "Contigs"
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pyScaf orders contigs from genome assemblies utilising several...losely related species in order to order contigs and estimate distances between adjacent contigs. Contigs are aligned globall...k the synteny. pyScaf works better with contigs than scaffolds, as scaffolds...2688 days ago
- ...gn primers to close gaps on shotgun assembled contigs based on a reference sequence...positions and identify syntenies of assembly contigs against the reference. The ou...ity function. Users could also run tblastx on contigs that are not used to generate...
2630 days ago
FinisherSC: a repeat-aware and scalable tool for upgrading de novo assembly using long reads
FinisherSC, a repeat-aware and scalable tool for upgrading de novo assembly using long reads. Experiments with real data suggest that FinisherSC can provide longer and higher quality contigs than existing tools while maintaining high concordance.2619 days ago
- MyCC, an automated binning tool that combines genomic signatures, marker genes and optional contig coverages within one or multiple samples, in order to visualize the metagenomes and to identify the reconstructed genomic fragments. More at http://www.nature.com/articles/srep24175
2615 days ago
CONCOCT: Clustering cONtigs with COverage and ComposiTion
A program for unsupervised binning of metagenomic contigs by using nucleotide composition, coverage data in multiple samples and linkage data from paired end reads. Warning! This sof...2612 days ago
- ...tion: sequence COmposition, CoverAge across multiple samples, CO-alignment to reference genomes and paired-end reads LinkAge to automatically bin contigs into OTUs. Furthermore, COCAC...
2611 days ago
gbtools: Interactive Visualization of Metagenome Bins in R
...eloped gbtools, a software package that allows users to visualize metagenomic assemblies by plotting coverage (sequencing depth) and GC values of contigs, and also to annotate the plo...2591 days ago
LoRDEC: a hybrid error correction program for long, PacBio reads
..., a larger portion of the sequence of PacBio reads is usable for detection of region of similarity with other sequences, for aligning them to the contigs of an assembly, etc. Why is...2577 days ago
- ...NCBI BLAST software tools. It is suitable for protein-protein search as well as DNA-protein search on short reads and longer sequences including contigs and assemblies, providing a s...
2560 days ago
- SSPACE standard is a stand-alone program for scaffolding pre-assembled contigs using NGS paired-read data. I..., SSPACE is able to assess the order, distance and orientation of your contigs and combine them into scaffol...
2552 days ago
