younglululu / CAFE
aCcelerated Alignment-FrEe sequence analysis
☆13Updated 6 years ago
Alternatives and similar repositories for CAFE:
Users that are interested in CAFE are comparing it to the libraries listed below
- Human pan-genome analysis pipeline☆29Updated 4 years ago
- a simulator of long read sequencing in pacbio and oxford nanopore☆15Updated 8 years ago
- This repo is deprecated. Please use gfatools instead.☆16Updated 6 years ago
- A program for fast and accurate genome-guided transcripts reconstruction and quantification from RNA-seq (Supporting Pacbio single-end)☆23Updated 3 years ago
- [mu]tation [s]pectrum [h]istory [i]nference☆25Updated 2 months ago
- RNA modification detection using Nanopore raw reads with Deep One Class classification☆19Updated 3 years ago
- ☆26Updated 3 years ago
- Parallel Sequence to Graph Alignment☆35Updated 2 years ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆48Updated 5 years ago
- Economic Genome Assembly from Low Coverage Illumina and Nanopore Data☆19Updated 3 years ago
- A python tool box for fast and accurate quality control, conversion and alignment of nanopore sequencing data☆20Updated 2 years ago
- A computational algorithm and software tool for fast and accurate detection of gene fusion by long-read transcriptome sequencing☆21Updated 3 years ago
- URMAP ultra-fast read mapper☆38Updated 4 years ago
- GAPPadder is tool for closing gaps on draft genomes with short sequencing data☆27Updated 7 years ago
- ARG-based inference of selection using deep learning☆18Updated last year
- detection of duplications and deletions using Python based machine learning techniques☆28Updated 5 years ago
- A toolkit for annotation of transposable element families from unassembled sequence reads☆30Updated last year
- Metalign: efficient alignment-based metagenomic profiling via containment min hash☆33Updated last year
- Metagenomics microbial abundance quantification☆27Updated 2 years ago
- Minor Variant Calling and Phasing Tools☆15Updated 3 years ago
- Evolutionary Transcriptomics with R☆42Updated this week
- This is the Haplotypo repository☆20Updated 10 months ago
- Haplotype phaser for next-generation sequencing data☆13Updated 3 years ago
- FQSqueezer - FASTQ compressor based on k-mer statistics☆16Updated last year
- COCACOLA: a general framework for binning contigs in metagenomic studies incorporating read COverage, CorrelAtion, sequence COmposition a…☆17Updated 8 years ago
- The repository keeps the files for an IPython notebook on about how to make a simple genome assembler using python☆31Updated 6 years ago
- A microbial profiling framework for metagenomic analysis☆24Updated 4 years ago
- genotype dimensionality reduction with a VAE☆44Updated 3 weeks ago
- Fast inference of fine-scale recombination rates based on fused-LASSO☆49Updated this week
- Locus and lineage tests for bacterial GWAS☆29Updated 7 years ago