bergmanlab / mcclintock
Meta-pipeline to identify transposable element insertions using next generation sequencing data
☆99Updated last year
Alternatives and similar repositories for mcclintock:
Users that are interested in mcclintock are comparing it to the libraries listed below
- Few scripts facilitating the extraction of info from Repeat Masker .out files☆80Updated 3 years ago
- Collection of tools for the analysis of CpG data☆81Updated 3 months ago
- Dfam Transposable Element Tools Docker container.☆92Updated last month
- Same species annotation lift over pipeline.☆97Updated last year
- Find, circularise and annotate mitogenome from PacBio assemblies☆181Updated 2 months ago
- Tools for working with second gen assemblies, fasta sequences, etc☆93Updated 8 years ago
- Mapping pipeline for data generated using Arima-HiC☆76Updated 11 months ago
- Phased assembly variant caller☆112Updated 5 months ago
- source code for EVM☆109Updated 5 months ago
- MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data☆102Updated last year
- Synteny Imager☆61Updated 8 months ago
- A set of functions to visualise genotypes based on a VCF☆86Updated 3 years ago
- Read, manipulate and visualize 'Pairwise mApping Format' data in R☆72Updated 4 years ago
- Lima - Demultiplex Barcoded PacBio Samples☆66Updated last week
- Wally: Visualization of aligned sequencing reads and contigs☆115Updated 2 weeks ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆95Updated 2 months ago
- A tool to identify, orient, trim and rescue full length cDNA reads☆81Updated 2 years ago
- Application of pan-genome for population☆104Updated 6 months ago
- Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).☆87Updated 9 months ago
- Plotting tools for nanopore methylation data☆93Updated 11 months ago
- NLR-Annotator upload☆65Updated last year
- Long Reads Annotation pipeline☆72Updated 3 years ago
- ☆78Updated 4 years ago
- Pangenome-based genome inference☆128Updated 2 weeks ago
- dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…☆55Updated 2 years ago
- Constructing a pangenome gene graph☆187Updated last month
- A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles - fo…☆96Updated last week
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆161Updated last year
- A list of software for pangenomics☆111Updated last week
- ☆145Updated 2 weeks ago