caojiabao's repositories
alibaba_tianchi_book
阿里云天池大赛赛题解析
METEORE
Automatic DNA methylation detection from nanopore tools and their consensus model
rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.
NGS-analysis
二代测序数据分析
tutorials-1
Tutorials on phylogenetic and phylogenomic inference
pipeline-transcriptome-de
Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
DRAM
Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
vpf-tools
Virus Protein Family tools
Chinese-Text-Classification-Pytorch-1
中文文本分类，TextCNN，TextRNN，FastText，TextRCNN，BiLSTM_Attention，DPCNN，Transformer，基于pytorch，开箱即用。
TBtools
GUI/CommandLine Tool Box for biologistists to utilize NGS data.
kmer_models
Predictive kmer models for development use
MicrobiomeStatPlot
Interpretation and visualization of microbiome charts
cwSDTWnano
Here we proposed two novel algorithms, the Direct Subsequence Dynamic Time Warping for nanopore raw signal search (DSDTWnano) and the continuous wavelet Subsequence DTW for nanopore raw signal search (cwSDTWnano), to enable the direct subsequence inquiry and exact mapping in the nanopore raw signal datasets. The proposed algorithms are based on the idea of Subsequence-extended Dynamic Time Warping (SDTW) and directly operates on the raw signals, without any loss of information. DSDTWnano could ensure an output of highly accurate query result and cwSDTWnano is the accelerated version of DSDTWnano, with the help of seeding and multi-scale coarsening of signals that based on continuous wavelet transform (CWT).
ncbitax2lin
🐞 Convert NCBI taxonomy dump into lineages
sheng-xin-xiao-bai-yu
历史文档备份
VirPipeline
Profiling of Human Gut Virome with Oxford Nanopore Technology
ClusterGenomes
Archive for ClusterGenomes scripts
pytorch-generative-model-collections
Collection of generative models in Pytorch version.
Tet_code
The major code in "Reconstruction and dynamics of human intestinal microbiome observed in situ"
Beautiful-Visualization-with-R
《R语言数据可视化之美》配套代码
minced
Mining CRISPRs in Environmental Datasets
Numerical_Ecology_with_R-Second
Making notes during study 'Numerical Ecology with R second edition'
long-read-catalog
catalog for long-read sequencing tools
PhageMiner
A user-supervised semi-automated bioinformatics tool for prophage identification in bacterial genomes
my_WGCNA
WGCNA_analysis