Nanopore sequence read simulator
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Mar 12, 2026 - Python
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oxford-nanopore
Here are 38 public repositories matching this topic...
Long read based human genomic structural variation detection with cuteSV
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Mar 26, 2026 - Python
PEPPER-Margin-DeepVariant
nanopore variants variant-calling oxford-nanopore genome-variation long-reads pacbio-ccs assembly-polishing
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Jan 12, 2024 - Python
CLI tool for flexible and fast adaptive sampling on ONT sequencers
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Feb 25, 2026 - Python
Technology agnostic long read analysis pipeline for transcriptomes
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Jan 25, 2024 - Python
De novo clustering of long transcript reads into genes
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Apr 27, 2025 - Python
Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
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Jan 31, 2024 - Python
H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
genomics genome-sequencing genomes oxford-nanopore genome-analysis genome-assembly genomic-data-analysis genome-scale-models human-genetics
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Oct 28, 2020 - Python
Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
primer virus container sequencing conda python3 easy-to-use amplicons pcr illumina oxford-nanopore qpcr degenerate-primers primer-design sanger pypi-package primer-blast consensus-sequences ampliconseq multiplex-pcr
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Mar 23, 2026 - Python
Predict plasmids from uncorrected long read data
bioinformatics research nanopore genomics pathogen bioinformatics-pipeline pacbio global-health kmer oxford-nanopore plasmid infectious-diseases long-reads uncorrected plasmidfinder
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Feb 27, 2026 - Python
De novo construction of isoforms from long-read data
transcriptomics oxford-nanopore bioinformatics-tool reference-free pacbio-iso-seq transcript-reconstruction annotation-free
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Jun 10, 2025 - Python
SNP-Assisted SV Calling and Phasing Using ONT
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Jul 9, 2023 - Python
SegPore is a software to segment the raw signal of nanopore direct RNA sequencing and estimate the RNA modifications.
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Mar 3, 2026 - Python
Wrapper to read fast5, slow5, blow5 and pod5 files.
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Mar 26, 2025 - Python
Quality control plotting for long reads
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May 14, 2024 - Python
Stand-alone tool for methylation-based discrimination of mitochondrial DNA ONT reads
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Sep 22, 2025 - Python
Long sequencing reads classifier
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Sep 7, 2021 - Python
An awesome Oxford Nanopore Pipeline for direct RNA-sequencing
bioinformatics quality-control pipeline singularity alternative-splicing-analysis transcriptomics oxford-nanopore rna-editing differential-expression-analysis snakemake-pipeline novel-transcripts rna-modifications direct-rna-sequencing known-transcripts polya-tail-length-estimation
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Mar 17, 2025 - Python
High-performance dual barcode and primer demultiplexer for MinION sequenced reads, optimized for fungal DNA barcoding.
bioinformatics minion biodiversity oxford-nanopore demultiplexing sequence-analysis nanopore-sequencing dna-barcoding mycology fastq-processing
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Mar 15, 2026 - Python
Snakemake workflow for the detection of vector insertion sites (VIS) in long-read sequencing data
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Dec 18, 2025 - Python
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