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☆30Updated 3 years ago
- Improved Phased Assembler☆28Updated 3 years ago
- CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies☆24Updated 5 years ago
- Compute N50/NG50 and auN/auNG☆32Updated last year
- Python wrappers for programs that search for transposable elements☆19Updated 8 years ago
- ☆30Updated 5 years ago
- ☆27Updated last year
- A high performance tool to identify orthologs and paralogs across genomes.☆26Updated 2 years ago
- Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads☆22Updated 2 years ago
- ☆32Updated 4 years ago
- TELR is a fast non-reference transposable element detector from long read sequencing data.☆33Updated last year
- scripts to parse and analyse MCScanX collinearity output☆31Updated 5 years ago
- Segmental Duplication Assembler (SDA).☆44Updated 2 years ago
- Tool for assessing/improving assembly quality in extra-long tandem repeats☆46Updated 4 years ago
- calling SVs from Blasr contig level alignments☆54Updated 7 years ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆60Updated 5 years ago
- genomic alignment similarity search tool☆18Updated 3 weeks ago
- Yet another Hi-C scaffolding tool☆19Updated 7 months ago
- Visualising discordant reads☆15Updated 9 years ago
- Workflows for correcting and scaffolding long-read (PacBio, nanopore) genome assemblies using optical mapping and/or Dovetail Hi-C data☆20Updated 4 years ago
- An easy way to run BioNano genomic analysis☆27Updated 4 years ago
- Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish☆56Updated 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 …☆27Updated 3 years ago
- Create a pseudohaploid assembly from a partially resolved diploid assembly☆32Updated 5 years ago
- ☆30Updated 9 months ago
- SV calling for diploid assemblies☆27Updated last year
- An R package to identify and classify duplicated genes from whole-genome protein sequence data☆26Updated 2 months ago
- Likelihood-based Selective Sweep Detection☆37Updated last year
- Conditional Reciprocal Best Blast☆41Updated 8 years ago
- Chromosome-level synteny plotting using orthologous regions☆29Updated 8 months ago