A tool to identify, orient, trim and rescue full length cDNA reads
☆85Jul 4, 2022Updated 3 years ago
Alternatives and similar repositories for pychopper
Users that are interested in pychopper are comparing it to the libraries listed below
Sorting:
- Tools to annotate genomes using long read transcriptomics data☆45Dec 8, 2020Updated 5 years ago
- Pipeline for annotating genomes using long read transcriptomics data with pinfish☆28Dec 8, 2020Updated 5 years ago
- Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome☆73Jan 31, 2024Updated 2 years ago
- cDNA read preprocessing☆87Jul 25, 2024Updated last year
- Analysis components from Oxford Nanopore Research☆96Sep 4, 2024Updated last year
- Technology agnostic long read analysis pipeline for transcriptomes☆157Jan 25, 2024Updated 2 years ago
- Full-Length Alternative Isoform analysis of RNA☆250Mar 14, 2026Updated last week
- A tool for de novo clustering of long transcriptomic reads☆15Oct 2, 2022Updated 3 years ago
- ☆15Aug 3, 2018Updated 7 years ago
- Two pass alignment for long reads☆22Mar 9, 2021Updated 5 years ago
- a signal-level demultiplexer for Oxford Nanopore reads☆126Jan 18, 2021Updated 5 years ago
- Quality control for MinION sequencing data☆217Jan 26, 2023Updated 3 years ago
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆78Mar 21, 2023Updated 3 years ago
- Nanopore sequence read simulator☆293Mar 12, 2026Updated last week
- Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by a…☆204May 4, 2023Updated 2 years ago
- Create statistic summary of an Oxford Nanopore read dataset☆133Nov 4, 2022Updated 3 years ago
- pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…☆284Oct 18, 2024Updated last year
- Pipeline for de novo clustering of long transcriptomic reads☆26Jan 26, 2022Updated 4 years ago
- Scripts used in the analysis of C elegans dRNAseq data☆14Apr 7, 2024Updated last year
- qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.☆79Dec 15, 2020Updated 5 years ago
- Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads☆108Feb 7, 2023Updated 3 years ago
- De novo clustering of long transcript reads into genes☆70Apr 27, 2025Updated 10 months ago
- a long-read error correction tool using the multi-string Burrows Wheeler Transform☆45Jul 7, 2020Updated 5 years ago
- Plotting scripts for long read sequencing data☆536Updated this week
- adapter trimmer for Oxford Nanopore reads☆385May 8, 2024Updated last year
- A long read simulator based on badread idea☆22Oct 7, 2022Updated 3 years ago
- Version II of Mandalorion☆32Feb 1, 2019Updated 7 years ago
- High-quality Nanopore-only genome polisher☆69Aug 16, 2024Updated last year
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆256Mar 12, 2026Updated last week
- 🚝RAILS and 👞🔨Cobbler: Assembly Improvement by Long Sequence Scaffolding/Gap-filling☆27Mar 10, 2026Updated last week
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆65Oct 11, 2024Updated last year
- SquiggleKit: A toolkit for manipulating nanopore signal data☆128Feb 16, 2024Updated 2 years ago
- Transcript assembly and quantification for RNA-Seq☆495Dec 26, 2025Updated 2 months ago
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆278Sep 26, 2023Updated 2 years ago
- Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.☆234May 4, 2023Updated 2 years ago
- Nextflow pipeline for analysis of direct RNA Nanopore reads☆110Nov 21, 2025Updated 4 months ago
- Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)☆118Mar 2, 2026Updated 2 weeks ago
- Sequence correction provided by ONT Research☆501Dec 8, 2025Updated 3 months ago
- Flip-flop basecaller for Oxford Nanopore reads☆99Jan 13, 2022Updated 4 years ago