Jit
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CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
By Rahul Nayak 2994 days agohttps://cblab.org/camsa/ - CAMSA – is a tool for Comparative Analysis and Merging of Scaffold Assemblies, distributed both as a standalone software package and as Python library under the MIT license. Main features: works with any number of...Metassembler: merging and optimizing de novo genome assemblies
By Rahul Nayak 2863 days agosourceforge.net - Metassembler combines multiple whole genome de novo assemblies into a combined consensus assembly using the best segments of the individual assemblies. Genome assembly projects typically run multiple algorithms in an attempt to find the single best...SALSA: A tool to scaffold long read assemblies with Hi-C
By Jit 2825 days agogithub.com - This code is used to scaffold your assemblies using Hi-C data. This version implements some improvements in the original SALSA algorithm. If you want to use the old version, it can be found in the old_salsa branch. To use the latest version,...Rebaler: program for conducting reference-based assemblies using long reads.
By Jit 2730 days agogithub.com - Rebaler is a program for conducting reference-based assemblies using long reads. It relies mainly on minimap2 for alignment and Racon for making consensus sequences. I made Rebaler for bacterial genomes (specifically for the...Merqury: reference-free quality and phasing assessment for genome assemblies
By Jit 2103 days agogithub.com - 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 independently evaluating assembly quality without the need of a high quality...Minipolish: A tool for Racon polishing of miniasm assemblies
By BioStar 2289 days agogithub.com - Miniasm is a great long-read assembly tool: straight-forward, effective and very fast. However, it does not include a polishing step, so its assemblies have a high error rate – they are essentially made of stitched-together pieces of long...RagTag: a collection of software tools for scaffolding and improving modern genome assemblies
By Jit 1641 days agogithub.com - 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 mergingNucDiff: In-depth characterization and annotation of differences between two sets of DNA sequences
By Jit 2135 days agogithub.com - NucDiff locates and categorizes differences between two closely related nucleotide sequences. It is able to deal with very fragmented genomes, structural rearrangements and various local differences. These features make NucDiff to be perfectly...Finding a mimicry game for teaching on-line and mentioned general resources
By Shruti Paniwala 1351 days agofinding a mimicry game for teaching on-line and mentioned general resourcesGenomic Basis of Evolutionary Innovations (GEvol)
By BioStar 94 days agog-evol.uni-muenster.de - The Priority Programme (SPP 2349) funded by German Science Foundation (DFG) started 2022: „Genomic Basis of Evolutionary Innovations (GEvol)“ GEvol is unique as it will use, for the first time, a large taxonomic group to focus on one...
