deepomicslab / SpecHLA
SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, and -DRB1 genes. Also, it supports both short- and long-read data.
☆38Updated 2 months ago
Related projects ⓘ
Alternatives and complementary repositories for SpecHLA
- Long-read Isoform Quantification and Analysis☆39Updated 3 months ago
- Tools for processing and analyzing structural variants.☆32Updated 9 years ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 4 years ago
- SingleCell Nanopore sequencing data analysis☆52Updated last month
- ENCODE long read RNA-seq pipeline☆44Updated last year
- Quantitation and visualization of differential alternative splicing events☆9Updated last year
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆33Updated last year
- ☆24Updated 4 years ago
- Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files☆13Updated 7 months ago
- ☆33Updated last year
- Pipeline to identify isoforms from full-length cDNA sequencing data☆22Updated 6 months ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆36Updated 2 years ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆47Updated 4 years ago
- ☆37Updated last year
- ☆21Updated 2 weeks ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆21Updated 2 years ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆56Updated last month
- Reconstruction of focal amplifications with long reads☆13Updated this week
- Runs a combination of tools to generate structural variant calls on whole-genome sequencing data☆46Updated 4 years ago
- Error correction of ONT transcript reads☆58Updated last year
- Benchmarking of CNV calling tools☆18Updated 5 years ago
- Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.☆24Updated 9 years ago
- Identify and annotate TE-mediated insertions in long-read sequence data☆40Updated last year
- Structural variant merging tool☆46Updated 3 months ago
- ☆19Updated last year
- ☆53Updated 3 years ago
- tools to find circRNAs in RNA-seq data☆40Updated 7 years ago
- The ECCsplorer is a bioinformatics pipeline for the automated detection of extrachromosomal circular DNA (eccDNA) from paired-end read da…☆18Updated 7 months ago
- ☆50Updated last year
- Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data☆66Updated 2 months ago