Tools to annotate genomes using long read transcriptomics data
☆45Dec 8, 2020Updated 5 years ago
Alternatives and similar repositories for pinfish
Users that are interested in pinfish are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Pipeline for annotating genomes using long read transcriptomics data with pinfish☆28Dec 8, 2020Updated 5 years ago
- A tool to identify, orient, trim and rescue full length cDNA reads☆85Jul 4, 2022Updated 3 years ago
- Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads☆110Feb 7, 2023Updated 3 years ago
- 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 2 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Two pass alignment for long reads☆22Mar 9, 2021Updated 5 years ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆68Oct 11, 2024Updated last year
- Version II of Mandalorion☆32Feb 1, 2019Updated 7 years ago
- a signal-level demultiplexer for Oxford Nanopore reads☆126Jan 18, 2021Updated 5 years ago
- Snakemake pipelines for nanopore sequencing data archiving and processing☆92Feb 2, 2022Updated 4 years ago
- Flip-flop basecaller for Oxford Nanopore reads☆97Jan 13, 2022Updated 4 years ago
- Analysis components from Oxford Nanopore Research☆97Apr 9, 2026Updated 2 months ago
- MultiBreak-SV identifies structural variants from next-generation paired end data, third-generation long read data, or data from a combin…☆12Jul 19, 2016Updated 9 years ago
- Integrated toolkit for analysis and evaluation of annotated genomes☆25Aug 1, 2025Updated 11 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- fastq quality assessment and filtering tool☆17Dec 10, 2022Updated 3 years ago
- Technology agnostic long read analysis pipeline for transcriptomes☆159Jan 25, 2024Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆52Aug 9, 2021Updated 4 years ago
- Full-Length Alternative Isoform analysis of RNA☆254Jun 23, 2026Updated last week
- Nanopore sequence read simulator☆305Mar 12, 2026Updated 3 months ago
- qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.☆79Dec 15, 2020Updated 5 years ago
- TransDecoder source☆307Mar 22, 2026Updated 3 months ago
- Pore-C support☆54Feb 22, 2023Updated 3 years ago
- Scaffolding with RNA-seq read alignment☆21Jul 10, 2018Updated 7 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- A tool for de novo clustering of long transcriptomic reads☆14Oct 2, 2022Updated 3 years ago
- Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish☆57Jun 18, 2026Updated 2 weeks ago
- Code to perform homolog detectability analyses as described in Weisman et al. 2020 (https://www.biorxiv.org/content/10.1101/2020.02.27.96…☆18Nov 18, 2024Updated last year
- Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome☆72Jan 31, 2024Updated 2 years ago
- Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data☆114Oct 25, 2021Updated 4 years ago
- Long Reads Annotation pipeline☆71Mar 31, 2022Updated 4 years ago
- Add multiple thread function for genome comparison☆17Sep 29, 2021Updated 4 years ago
- SYNPHONI is a tool designed for reconstructing the dynamic evolution of syntenic relationships across all scales of phylogenetic distance…☆12May 7, 2023Updated 3 years ago
- Scaffolding of genomic assemblies with RNA seq data☆15Oct 8, 2015Updated 10 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- RNA modifications detection from Nanopore dRNA-Seq data☆88Jun 20, 2026Updated last week
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆279Sep 26, 2023Updated 2 years ago
- Conditional Reciprocal Best Blast☆44Mar 22, 2017Updated 9 years ago
- DeepMP is a computational tool to detect DNA modifications in Nanopore sequencing data☆27Mar 18, 2022Updated 4 years ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Jul 29, 2021Updated 4 years ago
- pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…☆285Oct 18, 2024Updated last year
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago