Pipeline for processing and analyzing CiFi data
☆12Sep 24, 2026Updated last month
Alternatives and similar repositories for CiFi
Users that are interested in CiFi are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Isoform Identification and Quantification via Long Read RNA-Seq☆17Updated this week
- PAQman is a tool for a reference-free and comprehensive evaluation of genome assemblies☆10Sep 5, 2026Updated last month
- ☆14Sep 20, 2026Updated last month
- High-fidelity 5mC DNA methylation detection model for PacBio HiFi reads☆16Apr 10, 2026Updated 6 months ago
- An R package for predicting ploidal level from sequence data using site-based heterozygosity☆19Aug 30, 2026Updated last month
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Fast long-read RNA-seq mapping to a transcriptome with locally consistent parsing☆21Updated this week
- A multiscale pangenome browser☆36Jul 18, 2026Updated 3 months ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated last year
- VolcanoSV enables accurate and robust structural variant calling in diploid genomes from single-molecule long read sequencing☆10Sep 8, 2026Updated last month
- ☆11Apr 25, 2024Updated 2 years ago
- Error correction of long reads☆16Jan 30, 2026Updated 8 months ago
- Distinguishing among modes of convergent adaptation using population genomic data: statistical inference method, extensions, and examples☆14May 1, 2019Updated 7 years ago
- A general technique to reduce memory consumption and improve the performance of gap-affine and dual gap-affine sequence alignment algorit…☆17Jan 22, 2026Updated 9 months ago
- rust tool to choose the best read alignment between haploids to a diploid reference genome☆21Oct 20, 2026Updated last week
- 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.
- Topsicle utilizes abundance of telomere pattern k-mers to estimate telomere length in long read.☆22Mar 2, 2026Updated 7 months ago
- Code for assembly approach presented in "Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspri…☆15Nov 20, 2023Updated 2 years ago
- online variation graph induction☆12Oct 21, 2025Updated last year
- A newly designed version of Bamsnap with Long Read Support (LRS) which inspired by bamsnap (https://github.com/parklab/bamsnap)☆14Oct 13, 2026Updated 2 weeks ago
- Listing of GPU based bioinformatics software & sites & publications☆12Jan 16, 2022Updated 4 years ago
- Copy number variant caller and depth visualization utility for PacBio HiFi reads☆51Oct 22, 2024Updated 2 years ago
- Benchmark data structures for kmer sets.☆13Aug 29, 2026Updated 2 months ago
- PHasing Reads in Areas Of Homozygosity☆14Feb 12, 2025Updated last year
- Alignment-free pangenome browser and analysis toolkit☆104Updated this week
- 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.
- Post-verkko graph and assembly curation in Python.☆37Updated this week
- Single-pass probabilistic duplicate marking of alignments with a Bloom filter.☆22Aug 7, 2023Updated 3 years ago
- An HLA star-calling tool for PacBio HiFi data types☆23Feb 26, 2025Updated last year
- Find locations of k-mers☆13Dec 6, 2025Updated 10 months ago
- Genome Assembly 102☆19Apr 23, 2025Updated last year
- Enumerating bubbles in pangenome graphs☆16Oct 19, 2026Updated last week
- SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …☆62Jul 27, 2026Updated 3 months ago
- ☆14Jul 30, 2026Updated 2 months ago
- Identifies duplicate reads. This tool locates and tags duplicate reads in a coordinate ordered SAM or BAM file.☆30Jan 21, 2026Updated 9 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- JTK -- a regional diploid genome assembler☆27Apr 22, 2026Updated 6 months ago
- A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies☆37Jun 30, 2024Updated 2 years ago
- ☆34Apr 7, 2025Updated last year
- Robust individual and aggregate checksums for nucleotide sequences☆18Mar 3, 2026Updated 7 months ago
- Find and decompose genomic variation sites in pangenome graphs☆17Aug 17, 2026Updated 2 months ago
- POSTRE: Prediction Of STRuctural variant Effects☆31Sep 3, 2026Updated last month
- PhenoSV: Interpretable phenotype-aware model for the prioritization of genes affected by structural variants.☆18Feb 11, 2025Updated last year