Python Genome-rearrangment Resources

jie jie is a spatial genome aligner. This package parses true chromatin imaging signal from noise by aligning signals to a reference DNA polymer model

Circular genome tools (cgt) A sage package for working with circular genomes represented by signed or unsigned permutations. It includes tools for con

gapmm2: gapped alignment using minimap2 This tool is a wrapper for minimap2 to r

Sequential-GAM Pipeline code for Sequential-GAM(Genome Architecture Mapping). mapping whole_preprocess.sh include the whole processing of mapping. usa

Scene Graph Generation Object Detections Ground truth Scene Graph Generated Scene Graph In this visualization, woman sitting on rock is a zero-shot tr

bottom-up-attention This code implements a bottom-up attention model, based on multi-gpu training of Faster R-CNN with ResNet-101, using object and at

(intron I nterrogator and C lassifier) intronIC is a program that can be used to classify intron sequences as minor (U12-type) or major (U2-type), usi

script-SV-genotyping These are the scripts used for the project of ‘Assembly of a pan-genome for global cattle reveals missing sequence and novel stru

gff-rename Replace the sequence IDs in a gff3 file with a set of provided sequence IDs from a genom.fasta. This is useful when a gff3 file is retrieve

cLoops2: full stack analysis tool for chromatin interactions Introduction cLoops2 is an extension of our previous work, cLoops. From loop-calling base

CBMPy Metadraft: a flexible and extensible, GUI-based genome-scale model reconstruction tool that supports multiple Systems Biology standards.

CRISPR-detector Here we propose our CRISPR-detector to facilitate the CRISPR-edited amplicon and whole genome sequencing data analysis, with functions

Learning Canonical Representations for Scene Graph to Image Generation (ECCV 2020) Roei Herzig*, Amir Bar*, Huijuan Xu, Gal Chechik, Trevor Darrell, A

rust-mdbg: Minimizer-space de Bruijn graphs (mdBG) for whole-genome assembly rust-mdbg is an ultra-fast minimizer-space de Bruijn graph (mdBG) impleme

Sequence -----------+-- 3D_structure -- 3D_module --+ +-- ? | |