Liftoff: an accurate tool that maps annotations in GFF or GTF between assemblies
...Liftoff, an accurate tool that maps annotations in GFF or GTF between assemblies of the same, or closely-relat...uo; file as input, Liftoff is a standalone tool that takes two genome assemblies and a reference annotation as...1419 days ago
merqury: Evaluate genome assemblies with k-mers
Often, genome assembly projects have illumina whole genome sequencing reads available for the assembled individual. The k-mer spectrum of this read set can be used for in...1416 days ago
Liftoff: An accurate GFF3/GTF lift over pipeline
...toff is a tool that accurately maps annotations in GFF or GTF between assemblies of the same, or closely-relat...uo; file as input, Liftoff is a standalone tool that takes two genome assemblies and a reference annotation as...1246 days ago
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
...eral hours and works with the California redwood genome, one of the most complex genomes sequenced so far. Hifiasm can produce primary/alternate assemblies of quality competitive with t...1242 days ago
GraphUnzip: Phases an assembly graph using Hi-C data and/or long reads.
...datasets for the genomes of the rotifer Adineta vaga and the potato Solanum tuberosum. In all cases, GraphUnzip yielded highly continuous phased assemblies. https://www.biorxiv.org/con...1198 days ago
264 days ago
QuasiModo - Quasispecies Metric Determination on Omics
...ed, mixed strain HCMV sequence samples, each consisting of two lab strains in different abundance ratios. This tool can also be used to evaluate assemblies and variant calling results o...1058 days ago
Kmer: a suite of tools for DNA sequence analysis
...lp.rc.ufl.edu/doc/Kmer This also includes: A2Amapper: ATAC, Assembly to Assembly Comparision tool: Comparative mapping between two genome assemblies (same species), or between tw...1005 days ago
RagTag: a collection of software tools for scaffolding and improving modern genome assemblies
RagTag is a collection of software tools for scaffolding and improving modern genome assemblies. Tasks include: Homology-based misassembly correction Homology-based assembly scaffolding and patching Scaffold merging981 days ago
WAAFLE: a Workflow to Annotate Assemblies and Find LGT Events.
...ifying LGTs from community metagenomes remains an open problem. To address this, we developed WAAFLE: a Workflow to Annotate Assemblies and Find LGT E...969 days ago