starskyzheng / panpop
Application of pan-genome for population
☆96Updated last month
Related projects ⓘ
Alternatives and complementary repositories for panpop
- Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).☆81Updated 3 months ago
- tomato graph pangenome☆73Updated last year
- Mapping pipeline for data generated using Arima-HiC☆71Updated 5 months ago
- Structural Variant Identification Method using Genome Assemblies☆93Updated 2 years ago
- TEtrimmer: a novel tool to automate manual curation of transposable elements☆67Updated 3 weeks ago
- Repeat-aware polishing genomes assembled using HiFi long reads☆70Updated this week
- Evaluation and polishing workflows for T2T genome assemblies☆104Updated last month
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆90Updated last month
- source code for EVM☆103Updated 10 months ago
- Collection of tools for the analysis of CpG data☆74Updated 8 months ago
- Phased assembly variant caller☆98Updated 3 weeks ago
- PacBio BAM toolkit☆39Updated 3 weeks ago
- Pangenome-based genome inference☆114Updated this week
- Hybrid error correction of long reads using colored de Bruijn graphs☆96Updated last month
- Annotation helper tool for the manual curation of transposable element consensus sequences☆45Updated 5 months ago
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆101Updated 3 weeks ago
- Identification of errors in draft genome assemblies with single-base pair resolution for quality assessment and improvement☆56Updated last month
- GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered …☆118Updated 2 weeks ago
- Evaluate variant calls and its combination with k-mer multiplicity☆64Updated last year
- Constructing a pangenome gene graph☆174Updated 4 months ago
- Yet another k-mer analyzer☆115Updated 7 months ago
- MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data☆92Updated 7 months ago
- Copy number variant caller and depth visualization utility for PacBio HiFi reads☆38Updated 3 weeks ago
- Tandem repeat expansion detection or genotyping from long-read alignments☆70Updated last month
- Pipeline to convert a haploid assembly into diploid☆92Updated 6 months ago
- Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file☆47Updated last month
- A *fast* tool for BAM/CRAM quality evaluation, intended for long reads☆128Updated this week
- Panacus is a tool for computing statistics for GFA-formatted pangenome graphs☆85Updated 3 weeks ago
- A genomic k-mer counter (and sequence utility) with nice features.☆116Updated 2 weeks ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆169Updated 3 months ago