4ureliek / TEanalysis
Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
☆26Updated 5 years ago
Alternatives and similar repositories for TEanalysis:
Users that are interested in TEanalysis are comparing it to the libraries listed below
- BamDeal: a comprehensive toolkit for bam manipulation☆53Updated 2 years ago
- ☆27Updated this week
- Genome scaffolding based on HiC data in heterozygous and high ploidy genomes☆60Updated 4 months ago
- Transposable element polymorphism identification☆33Updated 4 years ago
- De novo annotation of young retrotransposons☆48Updated 3 years ago
- GENE-SWitCH project RNA-Seq analysis pipeline☆25Updated 2 months ago
- A pipeline for isoseq☆23Updated 6 years ago
- Error correction of ONT transcript reads☆58Updated last year
- ENCODE long read RNA-seq pipeline☆47Updated 2 years ago
- dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…☆55Updated 2 years ago
- Perform GWAS with gemma in a simple pipeline☆26Updated last week
- Evolutionary Transcriptomics with R☆43Updated this week
- TEMP is a software package for detecting transposable elements (TEs) insertions and excisions from pooled high-throughput sequencing dat…☆22Updated 7 years ago
- Simple code snippets and data for the One Flowcell - One Assembly study☆36Updated 7 years ago
- tutorial on pggb☆34Updated 3 months ago
- TE tools for TE RNASeq and smallRNASeq analysis with galaxy☆12Updated 4 years ago
- Tool set for processing fasta/fastq/table formated data. Usually they are perl scripts.☆54Updated this week
- Code for phasing SVs with SNPs☆52Updated 5 years ago
- BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.☆27Updated 5 years ago
- Pipeline to identify isoforms from full-length cDNA sequencing data☆24Updated this week
- My collection of light bioinformatics analysis pipelines for specific tasks☆74Updated 11 months ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆50Updated 4 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
- Calculate GC% and GC deviation for circular genomes☆17Updated 4 years ago
- Structural variant merging tool☆49Updated 8 months ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 4 years ago
- an R/Shiny application for interactive creation of non-circular plots of whole genomes☆45Updated 2 years ago
- ☆21Updated 6 years ago
- microRNA PREdiction From small RNA-seq data☆29Updated 7 years ago
- Identify and annotate TE-mediated insertions in long-read sequence data☆41Updated last year