lpryszcz / pyScaf
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
- Improved Phased Assembler☆28Updated 3 years ago
- Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads☆22Updated 2 years ago
- CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies☆24Updated 4 years ago
- A tool for recovering synteny blocks from multiple alignment☆29Updated 3 years ago
- scripts to parse and analyse MCScanX collinearity output☆30Updated 5 years ago
- assembly evaluation tool☆34Updated 2 years ago
- ☆25Updated last year
- Genome assembly soft-masking using Red (REpeat Detector)☆16Updated 6 years ago
- genomic alignment similarity search tool☆18Updated 9 months ago
- Yet another Hi-C scaffolding tool☆20Updated 4 months ago
- Compute N50/NG50 and auN/auNG☆31Updated last year
- Python wrappers for programs that search for transposable elements☆19Updated 8 years ago
- TELR is a fast non-reference transposable element detector from long read sequencing data.☆33Updated last year
- ☆26Updated 5 years ago
- ☆28Updated 2 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
- In-depth characterization and annotation of differences between two sets of DNA sequences☆60Updated 4 years ago
- Tool for assessing/improving assembly quality in extra-long tandem repeats☆46Updated 4 years ago
- Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish☆56Updated 2 years ago
- ☆34Updated 11 months ago
- Likelihood-based Selective Sweep Detection☆37Updated last year
- A tool for the recovery of unassembled telomeres from soft-clipped read alignments.☆35Updated 2 months ago
- methods for orphan gene prediction paper optimization☆25Updated 3 years ago
- Create a pseudohaploid assembly from a partially resolved diploid assembly☆32Updated 5 years ago
- We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …☆25Updated 3 years ago
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆37Updated 5 months ago
- FastK based version of Merqury☆22Updated last month
- An algorithm for centromere assembly using long error-prone reads☆26Updated 3 years ago
- Dot: An interactive dot plot viewer for comparative genomics☆32Updated last year
- ☆42Updated 10 months ago