☆14Apr 26, 2023Updated 2 years ago
Alternatives and similar repositories for SQANTI
Users that are interested in SQANTI are comparing it to the libraries listed below
Sorting:
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆10May 12, 2025Updated 9 months ago
- Invertory of TE-gene isoforms☆14Sep 18, 2023Updated 2 years ago
- ☆20Feb 1, 2026Updated last month
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- A Python library to visualize and analyze long-read transcriptomes☆66Jan 19, 2026Updated last month
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/DRIMSeq.html Bug Reports: https://support.bioconductor.org/p/new/post/…☆12Aug 5, 2020Updated 5 years ago
- Compares pangenome graphs by calculating the segmentation distance between two GFA (Graphical Fragment Assembly) files.☆13Oct 1, 2025Updated 5 months ago
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated last year
- Everything but the kitchen sink☆12Feb 6, 2025Updated last year
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 4 months ago
- lace up GFA files using panSN path name sub-ranges to coordinate the lacing☆14Jul 30, 2025Updated 7 months ago
- A toolkit for exploring regions of variation in pangenomes☆14Feb 14, 2026Updated 2 weeks ago
- Bash scripts and data used in pantranscriptomic paper☆24Oct 21, 2022Updated 3 years ago
- R package for RIVER (RNA-Informed Variant Effect on Regulation)☆12Mar 5, 2020Updated 5 years ago
- ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data☆20Apr 24, 2024Updated last year
- ANI based satellite annotation☆23Nov 7, 2025Updated 3 months ago
- Genome Assembly 102☆17Apr 23, 2025Updated 10 months ago
- Genome Assembly Validation via Inter-SUNK distances in ONT reads☆15Feb 20, 2023Updated 3 years ago
- MEME motif-based sequence analysis tools (http://meme-suite.org), with FreeBSD tweaks☆15Jul 26, 2017Updated 8 years ago
- Automated pipeline for running CoalHMM☆13Jan 9, 2026Updated last month
- An R package for comparative transcriptomic analyses of hybrids and their progenitors☆15Sep 5, 2024Updated last year
- Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files☆15Apr 4, 2024Updated last year
- Biochemical-free enrichment or depletion of RNA classes in real-time during direct RNA sequencing☆15Aug 27, 2025Updated 6 months ago
- ☆15Jun 29, 2021Updated 4 years ago
- Rust package for constructing and analyzing phylogenies. (unpolished & unmaintained)☆15May 1, 2025Updated 10 months ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated 6 months ago
- A graph-based pipeline used to call/genotype snvs/indels/SVs from NGS data☆17Aug 30, 2025Updated 6 months ago
- Prefix-renaming FASTA records really fast.☆17Jun 26, 2024Updated last year
- Error correction of ONT transcript reads☆58Sep 6, 2023Updated 2 years ago
- ☆16Jun 30, 2022Updated 3 years ago
- Demultiplexing and debarcoding tool designed for LR-Split-seq data.☆24Oct 19, 2023Updated 2 years ago
- ☆38Oct 6, 2025Updated 4 months ago
- The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.☆18Apr 9, 2025Updated 10 months ago
- Technology agnostic long read analysis pipeline for transcriptomes☆156Jan 25, 2024Updated 2 years ago
- MEMO: MEM-based pangenome indexing for k-mer queries☆20Jun 11, 2024Updated last year
- ☆19Apr 15, 2024Updated last year
- ☆39Apr 25, 2023Updated 2 years ago
- A reimplementation of a classical PSMC method in python for educational purposes☆17Jul 22, 2024Updated last year
- ☆21Dec 13, 2024Updated last year