Pinned Repositories
--Data-Analysis
-ISfinder-sequences
Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biotoul.fr/)
2024-11-11-Efcm_Efcs_analysis
附属基因分析
20241030-clinker
基因簇比较分析Gene cluster comparison figure generator
20241031-ClonalFrameML
ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
20241031-mob-suite
质粒分析-MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
20241031-PopPUNK
PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)
20241101-mashtree
:deciduous_tree: Create a tree using Mash distances
20241107-CRKP_ST11_KL64
Genome-centric Analysis Workflow for the CRKP_ST11_KL64 paper
20241108-Coreugate
A simple cgMLST pipeline
zjx12-bot's Repositories
zjx12-bot/--Data-Analysis
zjx12-bot/-ISfinder-sequences
Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biotoul.fr/)
zjx12-bot/2024-11-11-Efcm_Efcs_analysis
附属基因分析
zjx12-bot/20241030-clinker
基因簇比较分析Gene cluster comparison figure generator
zjx12-bot/20241031-ClonalFrameML
ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
zjx12-bot/20241031-mob-suite
质粒分析-MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
zjx12-bot/20241031-PopPUNK
PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)
zjx12-bot/20241101-mashtree
:deciduous_tree: Create a tree using Mash distances
zjx12-bot/20241107-CRKP_ST11_KL64
Genome-centric Analysis Workflow for the CRKP_ST11_KL64 paper
zjx12-bot/20241108-Coreugate
A simple cgMLST pipeline
zjx12-bot/ARG-global--
有定量分析-还没有尝试着比对定量Antibiotic resistance genes (ARGs) have accelerated microbial threats to human health during the last decade. Here we determined the risk of ARGs from multiple perspectives by using these code.
zjx12-bot/ARG_metagenome
非常完整的数据分析，但是我还是不清楚他是怎样进行定量的Metagenomic analysis workflow for the identification and quantification of antimicrobial resistance genes (ARG) from human stool samples..
zjx12-bot/BactDating
利用R包BactDating对细菌系统发育树的节点进行贝叶斯定年Bayesian inference of ancestral dates on bacterial phylogenetic trees
zjx12-bot/beast2
通过采样树进行贝叶斯进化分析--还是不知道具体作用，以及和其他贝叶斯分析软件的区别Bayesian Evolutionary Analysis by Sampling Trees
zjx12-bot/ChesapeakeBay_shotgun_metagenomics
宏基因组定量#bowtie was run for coverage, doesn't have to be repeated bowtie2 -x $IND
zjx12-bot/coinfinder
A tool for the identification of coincident (associating and dissociating) genes in pangenomes.
zjx12-bot/EasyMicrobiomeR
Using R language in microbiome analysis
zjx12-bot/flanker
需要尝试一下Gene-flank analysis tool
zjx12-bot/metagenomics
值得学习，宏基因组定量codes and scripts to run MetaG tools
zjx12-bot/panaroo
An updated pipeline for pangenome investigation----------泛基因组分析--保守一点
zjx12-bot/project_coprolite_viromes
好像有基因定量The scripts in this repo compose the bioinformatic pipeline used to collect and analyze publicly available human get metagenomic sequence data. Samples in this project were from modern-industrial samples, modern-non-industrial samples, and paleofecal samples, known as coprolites. The files and directories listed in main are descripted below.
zjx12-bot/studyhelper
学习强国 xxqg 助手
zjx12-bot/WRRFMetagenomicSurvey
完整宏基因组Project scripts for metagenomic survey between 3 EBPR and 3 S2EBPR WRRFs.
zjx12-bot/plascad
分类细菌质粒、耐药基因共定位和可视化 Plascad is a computationally efficient tool designed for plasmids classification, antibiotic resistance genes (ARGs) annotation and plasmid visualization.
zjx12-bot/TETyper
可移动元件分析transposable element typing pipeline
zjx12-bot/transcluster
Infer transmission clusters from SNP and timing data---解释