gencorefacility / reformLinks
Modify existing reference fasta and gff3/gtf files to include a new sequence
☆31Updated 3 weeks ago
Alternatives and similar repositories for reform
Users that are interested in reform 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
- ENCODE long read RNA-seq pipeline☆49Updated 2 years ago
- Snakemake-based workflow for detecting structural variants in genomic data☆80Updated 5 months ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆51Updated 5 years 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
- An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.☆54Updated 9 months ago
- A software for calculating telomere length☆70Updated 6 years ago
- TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.☆46Updated 2 years ago
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆35Updated 2 years ago
- Tip and tricks for BAM files☆85Updated 6 years ago
- SingleCell Nanopore sequencing data analysis☆60Updated last month
- LongcallR is a SNP caller for single molecule long-read RNA-seq data☆62Updated 2 weeks ago
- Long-read Isoform Quantification and Analysis☆38Updated 3 months 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
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 5 years ago
- Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.☆31Updated last year
- RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…☆67Updated 2 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- Tip and tricks for VCF files☆21Updated 6 years ago
- mtDNA Variant Caller☆34Updated 6 months ago
- for visual evaluation of read support for structural variation☆54Updated last year
- Genomic Association Tester☆31Updated 2 years ago
- ☆36Updated 2 years ago
- Lima - Demultiplex Barcoded PacBio Samples☆66Updated 2 months ago
- fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector☆22Updated 2 weeks ago
- BigWig and BAM utilities☆96Updated last year
- Identify and annotate TE-mediated insertions in long-read sequence data☆42Updated 2 weeks ago
- Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files☆14Updated last year
- BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.☆27Updated 6 years ago
- Allo: a multi-mapped read rescue strategy for gene regulatory analyses☆24Updated 10 months ago