Genome annotation editor with a Java Server backend and a Javascript client that runs in a web browser as a JBrowse plugin.
☆138Mar 11, 2026Updated last week
Alternatives and similar repositories for Apollo
Users that are interested in Apollo are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- JBrowse 1, a full-featured genome browser built with JavaScript and HTML5. For JBrowse 2, see https://github.com/GMOD/jbrowse-components.☆473Mar 9, 2026Updated 2 weeks ago
- Python programs for processing GFF3 files☆104Dec 15, 2025Updated 3 months ago
- Chromosome Scale Assembler: A high-throughput chromosome scale genome assembly pipeline for vertebrate genomes☆10Oct 16, 2024Updated last year
- A JBrowse 1 plugin to view multiple alignment format (MAF) files☆27Oct 25, 2023Updated 2 years ago
- ☆28Dec 1, 2022Updated 3 years ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆192May 11, 2025Updated 10 months ago
- source code for EVM☆122Nov 29, 2024Updated last year
- Simple and quick FastQ and FastA tool for file reading and conversion☆17Jul 11, 2014Updated 11 years ago
- JBrowse 2 plugin for editing annotations on an Apollo server☆15Updated this week
- Some components that speed up and reduce resource cost for original ALLHiC☆14Jun 21, 2025Updated 9 months ago
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆212Aug 21, 2024Updated last year
- Assembler for raw de novo genome assembly of long uncorrected reads.☆35Dec 11, 2019Updated 6 years ago
- Long read QC, assembly and scaffolding pipeline☆13Jul 13, 2020Updated 5 years ago
- STAG: Species Tree from All Genes☆35Dec 10, 2018Updated 7 years ago
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆292Feb 25, 2026Updated 3 weeks ago
- Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.☆176Apr 14, 2025Updated 11 months ago
- High throughput protein function annotation with Human Readable Description (HRDs) and Gene Ontology (GO) Terms.☆67Aug 16, 2023Updated 2 years ago
- k-mer based assembly evaluation☆340Jun 28, 2024Updated last year
- Chromosome-level scaffolding using multiple references☆165Sep 8, 2024Updated last year
- A genome assembler that reduces the computational time of human genome assembly from 400,000 CPU hours to 2,000 CPU hours, utilizing long…☆67Jul 23, 2020Updated 5 years ago
- A genome completeness evaluation tool based on miniprot☆237Sep 18, 2025Updated 6 months ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆188May 17, 2024Updated last year
- An accurate GFF3/GTF lift over pipeline☆531Aug 1, 2023Updated 2 years ago
- Source code for JBrowse 2, a modern React-based genome browser☆277Updated this week
- Evaluate variant calls and its combination with k-mer multiplicity☆67Dec 2, 2022Updated 3 years ago
- Add multiple thread function for genome comparison☆16Sep 29, 2021Updated 4 years ago
- Sorting Intolerant From Tolerant For Genomes☆31Nov 3, 2017Updated 8 years ago
- Peakzilla is a self-learning algorithm to identify transcription factor binding sites from ChIP-seq data. I would be very happy if you tr…☆21Aug 18, 2025Updated 7 months ago
- dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…☆60Mar 29, 2023Updated 2 years ago
- Coronavirus (SARS-Cov-2) sequencing analysis☆10Oct 5, 2021Updated 4 years ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- ☆78Jun 12, 2020Updated 5 years ago
- Tool to plot synteny and structural rearrangements between genomes☆343Apr 7, 2025Updated 11 months ago
- Mummer alignment tool☆551Feb 4, 2025Updated last year
- a tool for inferring species tree from sequencing reads☆159Dec 9, 2025Updated 3 months ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 4 years 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
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆268Mar 15, 2026Updated last week
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆451Oct 20, 2025Updated 5 months ago