secastel / allelecounter
Counts the number of reads which map to either the reference or alternate allele at each heterozygous SNP.
☆23Updated 6 years ago
Alternatives and similar repositories for allelecounter:
Users that are interested in allelecounter are comparing it to the libraries listed below
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆35Updated last year
- TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.☆44Updated 2 years ago
- ☆78Updated 11 years ago
- ENCODE long read RNA-seq pipeline☆45Updated 2 years ago
- Pipeline for annotating genomes using long read transcriptomics data with pinfish☆27Updated 4 years ago
- RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…☆65Updated 2 years ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 4 years ago
- heuristics to merge structural variant calls in VCF format.☆36Updated 8 years ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆48Updated 4 years ago
- Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.☆26Updated 5 years ago
- Filtering and profiling of next-generational sequencing data using region-specific rules☆76Updated last year
- ☆39Updated 11 months ago
- RiboDiff: Tool to detect changes in translational efficiency based on ribosome footprinting data☆23Updated 8 years ago
- Error correction of ONT transcript reads☆59Updated last year
- ☆79Updated 3 weeks ago
- An awk-like VCF parser☆56Updated last year
- A pipeline for analyzing DNA methylation data from bisulfite sequencing.☆70Updated 2 years ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆59Updated 5 months ago
- Linked-Read Alignment Tool☆27Updated 5 years ago
- Lima - Demultiplex Barcoded PacBio Samples☆65Updated 3 weeks ago
- PHAST☆72Updated last week
- QDNAseq package for Bioconductor☆49Updated 7 months ago
- Genomic Association Tester☆30Updated last year
- Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome☆68Updated last year
- Splice junction analysis and filtering from BAM files☆40Updated 2 years ago
- A package for quantifying transposable elements at a locus level for RNAseq datasets.☆25Updated last month
- Same species annotation lift over pipeline.☆96Updated last year
- Tools for working with second gen assemblies, fasta sequences, etc☆93Updated 8 years ago
- 4C-seq processing pipeline☆23Updated last week
- ☆26Updated 2 weeks ago