A tool for de novo clustering of long transcriptomic reads
☆15Oct 2, 2022Updated 3 years ago
Alternatives and similar repositories for isONclust2
Users that are interested in isONclust2 are comparing it to the libraries listed below
Sorting:
- Pipeline for de novo clustering of long transcriptomic reads☆26Jan 26, 2022Updated 4 years ago
- De novo clustering of long transcript reads into genes☆70Apr 27, 2025Updated 10 months ago
- Error correction of ONT transcript reads☆58Sep 6, 2023Updated 2 years ago
- An algorithm for centromere assembly using long error-prone reads☆25May 25, 2021Updated 4 years ago
- Reference-free clustering and consensus forming of long-read amplicon sequencing☆66Apr 21, 2025Updated 10 months ago
- A nextflow pipeline for polishing CLR assemblies☆18Feb 3, 2023Updated 3 years ago
- Simple tools for working with Hi-C data☆18Dec 19, 2018Updated 7 years ago
- A tool to identify, orient, trim and rescue full length cDNA reads☆85Jul 4, 2022Updated 3 years ago
- Functions to extract information from Oxford Nanopore sequencing data and alignments☆11Dec 4, 2025Updated 3 months ago
- Analysis Pipeline to analyze Nanopore RNAseq data☆29Mar 1, 2022Updated 4 years ago
- Integrated toolkit for analysis and evaluation of annotated genomes☆25Aug 1, 2025Updated 7 months ago
- The repository for codes developed to generated the Maize NC358 assemblies and analyses.☆10Apr 23, 2020Updated 5 years ago
- NanopolishComp is a Python3 package for downstream analyses of Nanopolish output files☆10Dec 22, 2020Updated 5 years ago
- C++ library for parsing several formats in bioinformatics☆10May 18, 2023Updated 2 years ago
- Bam Read Index - Extract alignments from a bam file by readname☆28Apr 22, 2024Updated last year
- Convert Tandem Repeat Finder dat file output into gff3 format☆30Nov 9, 2025Updated 3 months ago
- Multi-sample transcriptome assembly from RNA-Seq☆25Jun 10, 2018Updated 7 years ago
- Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads☆108Feb 7, 2023Updated 3 years ago
- A versatile toolkit for k-mers with taxonomic information☆82Aug 28, 2025Updated 6 months ago
- ☆78Jun 12, 2020Updated 5 years ago
- Genome Assembly Validation via Inter-SUNK distances in ONT reads☆15Feb 20, 2023Updated 3 years ago
- ☆15Aug 6, 2025Updated 6 months ago
- Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.☆11Jul 16, 2017Updated 8 years ago
- Long read to reference genome mapping tool☆13Mar 14, 2024Updated last year
- ☆26Oct 31, 2019Updated 6 years ago
- A lightweight library for working with PAF (Pairwise mApping Format) files☆30May 3, 2022Updated 3 years ago
- A versatile sequenced read processor for nanopore direct RNA sequencing☆82May 24, 2020Updated 5 years ago
- Scalable long read self-correction and assembly polishing with multiple sequence alignment☆54Feb 6, 2024Updated 2 years ago
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆15Sep 17, 2025Updated 5 months ago
- De novo clustering of long transcript reads into genes☆19Dec 15, 2025Updated 2 months ago
- Nanopore UMI-linked consensus sequencing☆16Feb 11, 2021Updated 5 years ago
- This tool is for users to upgrade their metagenomics assemblies using long reads. This includes fixing mis-assemblies and scaffolding/gap…☆13Mar 17, 2016Updated 9 years ago
- ☆15Feb 1, 2023Updated 3 years ago
- ☆15Sep 26, 2019Updated 6 years ago
- ☆16Mar 11, 2024Updated last year
- Python based pipeline management software for clusters (but checkout toil: https://github.com/BD2KGenomics/toil, its successor)☆24Sep 4, 2017Updated 8 years ago
- Add multiple thread function for genome comparison☆16Sep 29, 2021Updated 4 years ago
- A tool for recovering synteny blocks from multiple alignment☆32Oct 18, 2021Updated 4 years ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆65Oct 11, 2024Updated last year