14 Repositories
Python GENE Libraries
OntoProtein: Protein Pretraining With Ontology Embedding
OntoProtein This is the implement of the paper "OntoProtein: Protein Pretraining With Ontology Embedding". OntoProtein is an effective method that mak
80 Dec 14, 2022
A tool to generate valid ip addresses of 55 countries. These ip's can be used for OpenBullet.
IP-Grabber A tool to generate valid ip addresses of 55 countries. These ip's can be used for OpenBullet. ive added the feature to set the generated ip
9 Dec 17, 2022
Extract gene length based on featureCount calculation gene nonredundant exon length method.
Extract gene length based on featureCount calculation gene nonredundant exon length method.
12 Nov 21, 2022
Extract gene TSS site form gencode/ensembl/gencode database GTF file and export bed format file.
GetTss python Package extract gene TSS site form gencode/ensembl/gencode database GTF file and export bed format file. Install $ pip install GetTss Us
6 Nov 21, 2022
extract gene TSS/TES site form gencode/ensembl/gencode database GTF file and export bed format file.
GetTsite python Package extract gene TSS/TES site form gencode/ensembl/gencode database GTF file and export bed format file. Install $ pip install Get
7 Nov 21, 2022
Python script to download (TCR) genes from IMGT/GENE-DB
IMGTgeneDL 0.1.0 Jamie Heather | CCR @ MGH | 2021 This script provides an alternative way to access TCR and IG genes stored in IMGT/GENE-DB. It's prim
1 Mar 30, 2022
A repository with exploration into using transformers to predict DNA ↔ transcription factor binding
Transcription Factor binding predictions with Attention and Transformers A repository with exploration into using transformers to predict DNA ↔ transc
62 Dec 20, 2022
A variant caller for the GBA gene using WGS data
Gauchian: WGS-based GBA variant caller Gauchian is a targeted variant caller for the GBA gene based on a whole-genome sequencing (WGS) BAM file. Gauch
16 Oct 13, 2022
Using deep learning to predict gene structures of the coding genes in DNA sequences of Arabidopsis thaliana
DeepGeneAnnotator: A tool to annotate the gene in the genome The master thesis of the "Using deep learning to predict gene structures of the coding ge
3 Sep 9, 2022
Generative Exploration and Exploitation - This is an improved version of GENE.
GENE This is an improved version of GENE. In the original version, the states are generated from the decoder of VAE. We have to check whether the gere
33 Mar 23, 2022
Michael Vinyard's utilities
Install vintools To download this package from pypi: pip install vintools Install the development package To download and install the developmen
2 May 22, 2022
Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
Enformer - Pytorch (wip) Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch. The original tensorflow
235 Dec 27, 2022
InDels analysis of CRISPR lines by NGS amplicon sequencing technology for a multicopy gene family.
CRISPRanalysis InDels analysis of CRISPR lines by NGS amplicon sequencing technology for a multicopy gene family. In this work, we present a workflow
2 Jan 31, 2022
Deep functional residue identification
DeepFRI Deep functional residue identification Citing @article {Gligorijevic2019, author = {Gligorijevic, Vladimir and Renfrew, P. Douglas and Koscio
156 Dec 25, 2022