Scallop is a reference-based transcriptome assembler for RNA-seq
☆95Apr 30, 2021Updated 5 years ago
Alternatives and similar repositories for scallop
Users that are interested in scallop are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- toolkit to process gtf files☆17Dec 24, 2021Updated 4 years ago
- Normalization and difference calling for Next Generation Sequencing (NGS) data via joint multinomial modeling.☆11May 21, 2026Updated 2 months ago
- Improved multi-sample transcript abundance estimates using adaptive priors☆20Oct 29, 2018Updated 7 years ago
- Rapid and robust analysis of RNA-Seq experiments.☆32Apr 16, 2016Updated 10 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆43Updated this week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Squeakr: An Exact and Approximate k -mer Counting System☆86Feb 23, 2025Updated last year
- An efficient index for the colored, compacted, de Bruijn graph☆112Jun 19, 2026Updated last month
- Rapid Mapping-based Isoform Quantification from RNA-Seq Reads☆127Jun 9, 2022Updated 4 years ago
- A program for fast and accurate genome-guided transcripts reconstruction and quantification from RNA-seq (Supporting Pacbio single-end)☆25Apr 21, 2021Updated 5 years ago
- Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes☆31Jun 16, 2024Updated 2 years ago
- ☆24Jan 25, 2024Updated 2 years ago
- nimble aligner that will map your reads to the references on a laptop☆11Jun 29, 2017Updated 9 years ago
- De novo genome assembler.☆12Jul 30, 2018Updated 7 years ago
- Fast in-silico normalization algorithm for NGS data☆24Nov 1, 2021Updated 4 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.
- AlignerBoost is a generalized software toolkit for boosting Next-Gen sequencing mapping precision using a Bayesian based mapping quality …☆11Mar 1, 2022Updated 4 years ago
- Fast fusion detection using kallisto☆80Jun 11, 2025Updated last year
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Jan 18, 2019Updated 7 years ago
- Modeling and correcting fragment sequence bias for RNA-seq☆24Jun 4, 2024Updated 2 years ago
- Error correction for Illumina RNA-seq reads☆66Jan 4, 2026Updated 6 months ago
- This repository is deprecated, please use the link to the right.☆23Dec 11, 2018Updated 7 years ago
- Create Bloom filters for a given reference and then use it to categorize sequences☆78Nov 26, 2024Updated last year
- MEM mapper prototype☆13Nov 28, 2020Updated 5 years ago
- Splice junction analysis and filtering from BAM files☆44Mar 31, 2022Updated 4 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- SUPPA: Fast quantification of splicing and differential splicing☆306Nov 6, 2025Updated 8 months ago
- Mostly deprecated in favor of : https://github.com/hbc/bcbioRNASeq. Quality control, differential gene/transcript expression and pathway …☆26Dec 11, 2017Updated 8 years ago
- Estimating k-mer coverage histogram of genomics data☆78Mar 13, 2026Updated 4 months ago
- Automatic and optimised consensus clustering of one or more heterogeneous datasets☆170Oct 31, 2022Updated 3 years ago
- Fast and memory-efficient sequencing error corrector☆96Jan 4, 2026Updated 6 months ago
- ☆16Jun 29, 2026Updated last month
- Iterative error correction of long reads☆13Dec 9, 2022Updated 3 years ago
- Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.☆110Jun 17, 2022Updated 4 years ago
- Building SuperTranscripts: A linear representation of transcriptome data☆67Mar 22, 2021Updated 5 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.
- A Perl extension and collection of utilities for Next-Generation Sequencing (NGS) data analysis☆23Oct 31, 2025Updated 8 months ago
- ☆74Mar 1, 2019Updated 7 years ago
- Response to blog post about Salmon☆37Sep 3, 2017Updated 8 years ago
- Interval data structure☆234Mar 18, 2026Updated 4 months ago
- Understand your transcriptome assembly☆103Mar 22, 2024Updated 2 years ago
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Nov 27, 2019Updated 6 years ago
- GeneValidator: Identify problems with predicted genes☆49Mar 1, 2024Updated 2 years ago