gencorefacility / reformLinks
Modify existing reference fasta and gff3/gtf files to include a new sequence
☆33Updated 7 months ago
Alternatives and similar repositories for reform
Users that are interested in reform are comparing it to the libraries listed below
Sorting:
- IDR☆30Updated 2 years ago
- Genomic Association Tester☆35Updated 2 years ago
- Software to compute reproducibility and quality scores for Hi-C data☆50Updated 6 years ago
- TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.☆49Updated 3 years ago
- Snakemake-based workflow for detecting structural variants in genomic data☆82Updated 11 months ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆64Updated last year
- A tool for accurately detecting actively translating ORFs from Ribo-seq data☆40Updated last year
- SingleCell Nanopore sequencing data analysis☆63Updated 8 months ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 7 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆45Updated 3 years ago
- Software for Quantifying Interspersed Repeat Expression☆65Updated 3 years ago
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆36Updated 2 years ago
- Tip and tricks for BAM files☆86Updated 7 years ago
- code associated with crane-nature-2015, 10.1038/nature14450☆36Updated 10 years ago
- Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools☆84Updated 4 years ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 5 years ago
- A Python library to visualize and analyze long-read transcriptomes☆65Updated 2 weeks ago
- Ultraperformant reimplementation of SICER☆58Updated 2 months ago
- An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.☆58Updated last year
- ☆38Updated 2 years ago
- Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data☆28Updated 2 years ago
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆116Updated 3 weeks ago
- 4C-seq processing pipeline☆26Updated 10 months ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆41Updated 3 years ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆50Updated 5 years ago
- GIREMI is a method that can identify RNA editing sites using one RNA-seq data set without requiring genome sequence data.☆44Updated 8 years ago
- ☆64Updated 4 months ago
- A software for calculating telomere length☆73Updated 7 years ago
- fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector☆24Updated 2 weeks ago
- BISulfite-seq CUI Toolkit☆70Updated 3 months ago