awjga / PORE-cupine
First version of PORE-cupine. Detecting SHAPE modification using direct RNA sequencing
☆14Updated last year
Related projects: ⓘ
- ☆31Updated last year
- Penguin: A Tool for Predicting Pseudouridine Sites in Direct RNA Nanopore Sequencing Data☆12Updated 2 years ago
- RNA modification detection using Nanopore raw reads with Deep One Class classification☆19Updated 3 years ago
- Scripts for identifying sites with differential error rates in mapped nanopore DRS data☆10Updated 3 years ago
- Deep learning model used to detect RNA m6a with read level based on the Nanopore direct RNA data.☆22Updated last year
- Prediction of RNA modifications and their stoichiometry from per-read features: current intensity, dwell time and trace (Begik*, Lucas* e…☆23Updated last year
- An analysis pipeline for Nanopore direct-RNA sequencing☆11Updated 3 months ago
- Allo: a multi-mapped read rescue strategy for gene regulatory analyses☆22Updated 2 weeks ago
- Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files☆12Updated 5 months ago
- Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing☆32Updated 2 months ago
- Simple library/pipeline to generate and handle Hi-C data.☆36Updated 3 months ago
- nanoNOMe (Nucleosome Occupancy and Methylome nanopore sequencing) Analysis☆17Updated last year
- Hi-C Interaction Frequency Inference (HIFI): High-resolution estimation of DNA-DNA interaction frequency from Hi-C data☆23Updated last year
- Metacompore is a snakemake pipeline running multiple RNA modifications detection tools for nanopore directRNA sequencing☆9Updated 3 years ago
- Code accompanying "Direct detection of RNA modifications and structure using single molecule nanopore sequencing"☆13Updated 2 years ago
- Bioinformatic tool for Splice site Strength Estimation using RNA-seq☆14Updated last year
- An m6A-aware basecalling model to detect m6A modifications at single nucleotide resolution in individual reads (Cruciani, Delgado-Tejedo…☆14Updated 3 months ago
- Nanopore 3' end-capture sequencing (Begik et al., bioRxiv 2021)☆11Updated last year
- ☆18Updated last year
- LongcallR is a small variant caller for single molecule long-read RNA-seq data☆40Updated last week
- Identify and annotate TE-mediated insertions in long-read sequence data☆40Updated last year
- ☆17Updated 5 months ago
- Comprehensive and scalable differential splicing analyses☆13Updated 3 months ago
- An accurate repeat detection from Nanopore data using deep learning and image techniques☆19Updated last year
- curPrimers is a tool for trimming primer sequences from amplicon based NGS reads☆17Updated 4 years ago
- Long-read Isoform Quantification and Analysis☆39Updated last month
- The analysis pipeline for FLEP-seq☆13Updated last year
- Identifying genome-wide translated open reading frames using ribosome profiling☆19Updated last year
- Extract modifed base call information from Guppy Fast5 files.☆13Updated 2 years ago
- Digenome-toolkit ver2.☆15Updated 2 years ago