qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.
☆80Dec 15, 2020Updated 5 years ago
Alternatives and similar repositories for qcat
Users that are interested in qcat are comparing it to the libraries listed below
Sorting:
- a signal-level demultiplexer for Oxford Nanopore reads☆126Jan 18, 2021Updated 5 years ago
- adapter trimmer for Oxford Nanopore reads☆382May 8, 2024Updated last year
- Pipeline for annotating genomes using long read transcriptomics data with pinfish☆28Dec 8, 2020Updated 5 years ago
- A comparison of different Oxford Nanopore basecallers☆316Aug 5, 2019Updated 6 years ago
- Filtering and trimming of long read sequencing data☆214Jan 16, 2023Updated 3 years ago
- Sequence correction provided by ONT Research☆500Dec 8, 2025Updated 2 months ago
- Quality control for MinION sequencing data☆217Jan 26, 2023Updated 3 years ago
- Read contamination removal☆25Jan 24, 2024Updated 2 years ago
- A tool for Racon polishing of miniasm assemblies☆78Sep 5, 2025Updated 5 months ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Sep 5, 2022Updated 3 years ago
- Flip-flop basecaller for Oxford Nanopore reads☆99Jan 13, 2022Updated 4 years ago
- Two pass alignment for long reads☆22Mar 9, 2021Updated 4 years ago
- The ARTIC fieldbioinformatics pipeline☆129Jan 7, 2026Updated last month
- A tool to identify, orient, trim and rescue full length cDNA reads☆85Jul 4, 2022Updated 3 years ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆307Mar 18, 2024Updated last year
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆274Oct 13, 2022Updated 3 years ago
- A barcode demultiplexer for Oxford Nanopore long-read amplicon sequencing data☆10Nov 27, 2024Updated last year
- Analysis components from Oxford Nanopore Research☆96Sep 4, 2024Updated last year
- Plotting scripts for long read sequencing data☆534Dec 4, 2025Updated 2 months ago
- High-quality Nanopore-only genome polisher☆69Aug 16, 2024Updated last year
- Snakemake pipelines for nanopore sequencing data archiving and processing☆91Feb 2, 2022Updated 4 years ago
- Long-read splice alignment with high accuracy☆64Sep 26, 2024Updated last year
- SquiggleKit: A toolkit for manipulating nanopore signal data☆128Feb 16, 2024Updated 2 years ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 5 years ago
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 5 years ago
- A short analysis of Oxford Nanopore consensus accuracy for bacterial genome assemblies☆60Aug 6, 2019Updated 6 years ago
- Long-read mock community experiments☆104Oct 8, 2021Updated 4 years ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 4 years ago
- Signal-level algorithms for MinION data☆594Aug 5, 2023Updated 2 years ago
- Nanopore basecalling and consensus decoding☆46Jul 22, 2022Updated 3 years ago
- quality filtering tool for long reads☆394Sep 17, 2025Updated 5 months ago
- Error correction of ONT transcript reads☆58Sep 6, 2023Updated 2 years ago
- Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling☆105Sep 1, 2022Updated 3 years ago
- Benchmarking of long-read assembly tools for bacterial whole genomes☆170Mar 15, 2021Updated 4 years ago
- Pipeline for de novo clustering of long transcriptomic reads☆26Jan 26, 2022Updated 4 years ago
- Protobuff and gRPC specifications for the MinKNOW LIMS Interface☆13Apr 20, 2021Updated 4 years ago
- ONT assembly and Illumina polishing pipeline☆87Dec 8, 2020Updated 5 years ago
- Comparison of multiple long read datasets☆160Dec 2, 2025Updated 3 months ago
- Scalable long read self-correction and assembly polishing with multiple sequence alignment☆54Feb 6, 2024Updated 2 years ago