GoekeLab / bambu-singlecell-spatialLinks
Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu
☆14Updated 3 weeks ago
Alternatives and similar repositories for bambu-singlecell-spatial
Users that are interested in bambu-singlecell-spatial are comparing it to the libraries listed below
Sorting:
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆61Updated 9 months ago
- An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.☆54Updated 9 months ago
- fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector☆22Updated 2 weeks ago
- LongcallR is a SNP caller for single molecule long-read RNA-seq data☆62Updated 2 weeks ago
- Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files☆14Updated last year
- SingleCell Nanopore sequencing data analysis☆60Updated last month
- A program for the analysis of single cell nanopore long read data☆19Updated 2 weeks ago
- A Python library to visualize and analyze long-read transcriptomes☆62Updated 2 months ago
- Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.☆31Updated last year
- ENCODE long read RNA-seq pipeline☆49Updated 2 years ago
- ☆61Updated 11 months ago
- Prediction of RNA modifications and their stoichiometry from per-read features: current intensity, dwell time and trace (Begik*, Lucas* e…☆23Updated 2 years ago
- A Snakemake workflow for calling Fiber-seq Inferred Regulatory Elements (FIREs) on single molecules.☆21Updated 2 weeks ago
- Somatic structural variant caller for long-read data☆71Updated last month
- ☆23Updated 2 years ago
- R package to detect splicing QTLs (sQTLs)☆12Updated 2 years ago
- Long-read Isoform Quantification and Analysis☆38Updated 3 months ago
- Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed …☆44Updated last week
- ☆36Updated 2 years ago
- The Flexible Demultiplexer☆32Updated this week
- Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome☆68Updated last year
- Single-Cell Omics for Transcriptome CHaracterization (SCOTCH): isoform-level characterization of gene expression through long-read single…☆13Updated last week
- Set of tools to manipulate and visualize modified base bam files☆56Updated 2 years ago
- Error correction of ONT transcript reads☆58Updated last year
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆74Updated 2 years ago
- Pipeline to identify isoforms from full-length cDNA sequencing data☆25Updated 2 months ago
- ☆48Updated 10 months ago
- Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing☆40Updated 11 months ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 5 years ago
- trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…☆93Updated last month