DAJIN2 0.1.3

One-step genotyping tools for Nanopore amplicon sequencing

# DAJIN2 is now under development👷

I aim to release a stable version of DAJIN2 by March 2023:crossed_fingers: ## New planned features

### Wet experiments

• [ ] support nCATs

• [ ] support PacBio

### Functions

• [ ] output VCF

• [ ] multi-allele phasing

• [x] trim microhomology in BAM

### Usability

• [ ] easy installation - [ ] PyPI - [ ] BioConda - [ ] docker image

• [ ] support low-/middle-spec laptop

• [x] support macOS

• [x] support samples without a reference genome

• [x] support visualization using igv.js via DAJIN2 view command

• [x] support graphical user interface using flask via DAJIN2 gui command

### Maintainability

• [ ] tests

• [x] minimize dependencies - [x] Python, R, Bash -> Python - [x] samtools -> pysam - [x] minimap2 -> mappy - [x] remove NanoSim - [x] remove Tensorflow (GPU computation)