RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
...nbsp;bioRxiv 2019. RaGOO is a tool for coalescing genome assembly contigs into pseudochromosomes via m...ine with SV calling takes ~2 minutes. Intact ordering and orienting of contigs. Misassembly correction GF...1653 days ago
MEC: Contig Misassembly Correction
MEC, to identify and correct misassemblies in contigs. Firstly, MEC takes fragment coverage as the feature t...and the statistical analysis of GC-contents. We apply MEC to four real contig datasets, and carry out exper...1552 days ago
CSAR-web: a web server of contig scaffolding using algebraic rearrangements
CSAR-web is a web-based tool that allows the users to efficiently and accurately scaffold (i.e. order and orient) the contigs of a target draft genome based on a complete or incomplet...1486 days ago
CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)
Contig Annotation Tool (CAT) and Bin Annotation Tool (BAT) are pipelines for the taxo...against the nr protein database, and voting-based classification of the entire contig / MAG based on classification...1448 days ago
CSA: A high-throughput chromosome-scale assembly pipeline for vertebrate genomes
...or even from diverged (~65-100 Mya) reference genomes for ordering the contigs and thus support the assembly process. This typically results in improved contig N50 when compared to current...1152 days ago
CoverM: Read coverage calculator for metagenomics
...alculator focused on metagenomics applications. CoverM calculates coverage of genomes/MAGs coverm genome (help) or individual contigs coverm contig (help). Calculating cove...1102 days ago
876 days ago
UniqueKmer: Generate unique KMERs for every contig in a FASTA file
Generate unique k-mers for every contig in a FASTA file. Unique k-mer is consisted...ATCGATCCTTAAGG) that are only presented in one contig, but not presented in any oth...s the input of a FASTA file consisting of many contigs, and extract unique k-mers f...871 days ago
auN: a new metric to measure assembly contiguity
...ly, we often measure the “average” contig length by N50. N50 ...al average nor median. It is the length of the contig such that this and longer con...of the assembly. A longer N50 indicates better contiguity. We can similarly define...643 days ago