lpryszcz / pyScafLinks
Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.
☆24Updated 6 years ago
Alternatives and similar repositories for pyScaf
Users that are interested in pyScaf are comparing it to the libraries listed below
Sorting:
- A tool for recovering synteny blocks from multiple alignment☆31Updated 4 years ago
- Improved Phased Assembler☆28Updated 3 years ago
- CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies☆24Updated 5 years ago
- Visualising discordant reads☆15Updated 10 years ago
- ☆28Updated 2 years ago
- Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads☆21Updated 3 years ago
- Compute N50/NG50 and auN/auNG☆33Updated 2 years ago
- Tool for decomposition centromeric assemblies and long reads into monomers☆35Updated 3 years ago
- Genome assembly soft-masking using Red (REpeat Detector)☆18Updated 6 years ago
- TELR is a fast non-reference transposable element detector from long read sequencing data.☆34Updated 2 years ago
- SV calling for diploid assemblies☆29Updated last year
- scripts to parse and analyse MCScanX collinearity output☆32Updated 5 years ago
- A module for improving the insertion sequences of structural variant calls☆32Updated 4 years ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆63Updated 5 years ago
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Updated 7 years ago
- Create a pseudohaploid assembly from a partially resolved diploid assembly☆32Updated 5 years ago
- ☆31Updated 5 years ago
- TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain☆21Updated last year
- use variant nesting information to flter overlapping sites from vg deconstruct output☆26Updated 4 months ago
- Yet another Hi-C scaffolding tool☆22Updated last year
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆40Updated last year
- FastK based version of Merqury☆28Updated last month
- Tool for assessing/improving assembly quality in extra-long tandem repeats☆47Updated 4 years ago
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆35Updated 6 months ago
- ☆33Updated 4 years ago
- Identification of segmental duplications in the genome☆27Updated 3 years ago
- SV genotyper for long reads with a variation graph☆13Updated 2 months ago
- ☆28Updated 2 years ago
- We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …☆30Updated 3 years ago
- Ploidy agnostic phasing pipeline and algorithm☆48Updated last year