PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
☆297Feb 4, 2025Updated last year
Alternatives and similar repositories for pbbioconda
Users that are interested in pbbioconda are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A minimap2 frontend for PacBio native data formats☆221Jul 2, 2026Updated last month
- pbsv - PacBio structural variant (SV) calling and analysis tools☆168Jul 15, 2026Updated 3 weeks ago
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆242Jun 24, 2026Updated last month
- CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)☆127Mar 18, 2024Updated 2 years ago
- Improved Phased Assembler☆29Mar 11, 2022Updated 4 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- PacBio Assembly Tool Suite: Reads in ⇨ Assembly out☆118Sep 11, 2020Updated 5 years ago
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆800May 31, 2026Updated 2 months ago
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆283Sep 26, 2023Updated 2 years ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆310Mar 18, 2024Updated 2 years ago
- A single molecule sequence assembler for genomes large and small.☆706Jun 18, 2026Updated last month
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Jun 14, 2020Updated 6 years ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,231May 19, 2026Updated 2 months ago
- Fast and accurately polish the genome generated by long reads.☆244Jan 9, 2025Updated last year
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 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.
- ☆78Jun 12, 2020Updated 6 years ago
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆531Sep 27, 2023Updated 2 years ago
- ☆46Jun 21, 2020Updated 6 years ago
- PacBio BAM toolkit☆52Feb 26, 2025Updated last year
- k-mer based assembly evaluation☆352Jul 6, 2026Updated last month
- Lima - Demultiplex Barcoded PacBio Samples☆67Jun 8, 2026Updated 2 months ago
- Converting and demultiplexing of PacBio BAM files into gzipped fasta and fastq files.☆40Mar 14, 2023Updated 3 years ago
- Structural variation caller using third generation sequencing☆673Jul 20, 2026Updated 3 weeks ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆115Jun 6, 2021Updated 5 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- FALCON-Phase integrates PacBio long-read assemblies with Phase Genomics Hi-C data to create phased, diploid, chromosome-scale scaffolds☆72Nov 12, 2020Updated 5 years ago
- Long read / genome alignment software☆329Dec 16, 2025Updated 7 months ago
- Sequence-to-graph mapper and graph generator☆484Aug 11, 2025Updated last year
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆409Aug 4, 2026Updated last week
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆180Oct 20, 2024Updated last year
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆185Mar 25, 2026Updated 4 months ago
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆186Apr 12, 2023Updated 3 years ago
- De novo assembler for single molecule sequencing reads using repeat graphs☆948Apr 3, 2026Updated 4 months ago
- Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data☆52Feb 3, 2021Updated 5 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆189May 17, 2024Updated 2 years ago
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆278Updated this week
- ☆11Mar 4, 2025Updated last year
- Extensive de-novo TE Annotator☆466Jul 16, 2026Updated 3 weeks ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆29Sep 21, 2024Updated last year
- Fast and frugal disk based k-mer counter☆14Apr 1, 2021Updated 5 years ago
- Generate an interactive dot plot from mummer or minimap alignments☆219Jan 17, 2024Updated 2 years ago