douglasgscofield / PacBio-utilities
Collection of utilities for working with PacBio-based assemblies
☆13Updated last year
Related projects ⓘ
Alternatives and complementary repositories for PacBio-utilities
- Assembly by Reduced Complexity (ARC)☆41Updated 8 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆37Updated 4 years ago
- Find Unique genomic Regions☆29Updated this week
- Python HyPhy: Facilitating HyPhy execution and parsing☆21Updated 2 years ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 5 years ago
- Rapid competitive read demulitplexer. Made with tries.☆23Updated last year
- NaS is a hybrid approach developped to take advantage of data generated using MinION device. We combine Illumina and Oxford Nanopore tech…☆15Updated 7 years ago
- WGS (Wheat) Robust Assembly Pipeline☆22Updated 3 years ago
- Convert HAL to VG☆21Updated 3 months ago
- Annotated Genome Optimization Using Transcriptome Information☆20Updated 4 years ago
- Splitting and accelerating the Oxford Nanopore basecaller guppy using CPU with the SLURM job scheduler☆15Updated 4 months ago
- Functional annotation pipeline for proteins from non-model organisms implemented in Nextflow☆17Updated 2 years ago
- Validate and edit small eukaryotic genome assemblies☆31Updated last year
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- A tool to extract LOH blocks from VCF, BAM and FASTA data☆21Updated 2 months ago
- ☆26Updated 6 years ago
- transposable element typing pipeline☆17Updated 8 months ago
- Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …☆46Updated 2 years ago
- Kinship (genetic relatedness) using GBS (genotyping-by-sequencing) with Depth adjustment☆21Updated 3 months ago
- Fast in-silico normalization algorithm for NGS data☆22Updated 3 years ago
- Implementation of ToL genome assembly workflows☆20Updated last week
- Exact Tandem Repeat Finder (not a TRF replacement)☆46Updated 5 years ago
- Trimming tool for Oxford Nanopore sequence data☆22Updated 3 years ago
- Scaffolding with assembly likelihood optimization☆20Updated 3 years ago
- Homebrew formulae for bioinformatics software only available for Linux☆27Updated 5 years ago
- Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data☆15Updated 7 months ago
- extract MSAs from genome variation graphs☆33Updated 4 years ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆34Updated last year
- Merge transcriptome assemblies☆30Updated 8 years ago
- ☆15Updated 6 years ago