Xuan's Blog

Thinking will not overcome fear but action will.

Shell脚本中的循环

Shell中简单for循环的几种形式 1.变量 ${sample} for sample in name1 name2 name3 do ${sample}.input > result_${sample}.output done 2.遍历数值数组 array=（15 16 17 18 13） array=(1 2 3 4 5) for i in $(seq 0 5); do...

Posted by Xuan on February 18, 2020

‘Batch Effect Correction of RNA-seq Data through Sample Distance Matrix Adjustment’

Paper sharing

Paper sharing scBatch: Batch Effect Correction of RNA-seq Data through Sample Distance Matrix Adjustment papar info: 2020; published in Bioinformatics Novelty unfinish not seq error correc...

Posted by Xuan on February 18, 2020

综述k-mer counting方法

A review of k-mer counting methods

A benchmark study of k-mer counting methods for high-throughput sequencing – a review paper Catagories of k-mer counting methods Using the sorting approach sorting all k-mers extr...

Posted by Xuan on February 14, 2020

miRNA基础知识和数据库

Databases related to miRNA research

Basic Info of miRNA pri-miRNA:长度从几百到几千个碱基不等，带有 5‘帽子和 3’polyA 尾巴，以及 1 到数个发夹径环结构。 pre-miRNA:pri-miRNA 在核酸酶 Drosha 和其辅助因子 Pasha 的作用下被处理成 70 个核苷酸组成的前体。 mature miRNA:pre-miRNA 经进一步经过 DICER 酶剪切，形成长...

Posted by Xuan on February 12, 2020

上手git先掌握这几条命令

How to use git in Linux Command

How to use git in Linux Command Aim：a more convenient way to revise and synchronise git repositories. Install Git use command: git clone https://github.com/git/git use command to check git vers...

Posted by Xuan on February 11, 2020

miRNA-seq的预处理

FastQC & adapter_cut_tools (cutadapt,Trimmomatic)

How to preprocess miRNA-seq with FastQC and cutadapt Aim: conduct research on miRNA Data: SRR5233942 .fastq directly from EBI Please refer to SRA fastq Data Download FastQC tool To test fastq f...

Posted by Xuan on February 9, 2020