Today, I finally finished the exam that should have been finished a year ago. Tomorrow, I'm ready to start the lying down life (FOG) of my senior. Reviewing genetic engineering again is rewarding. In addition to professional progress, I also found this cold knowledge.
Tossing results: Click to view
Steps:
- Configure your blog
- Export xmind to markdown on iPad
- Process with written program
- Stick to markdown
First step
Just follow the official website and insert the required code into your index The corresponding location of the HTML. (the following is the same as the official website)
<!DOCTYPE html>
<html>
<head>
<link rel="stylesheet" href="//unpkg.com/docsify/lib/themes/vue.css">
</head>
<body>
<!-- markmap is based on d3, so must load those files first. -->
<script src="//unpkg.com/d3@3/d3.min.js"></script>
<script src="//unpkg.com/markmap@0.6.1/lib/d3-flextree.js"></script>
<script src="//unpkg.com/markmap@0.6.1/lib/view.mindmap.js"></script>
<link rel="stylesheet" href="//unpkg.com/markmap@0.6.1/style/view.mindmap.css">
<div id="app"></div>
<script>
window.$docsify = {
mindmap: {
// https://github.com/dundalek/markmap
markmap: {
preset: 'colorful', // or default
linkShape: 'diagonal' // or bracket
}
}
}
</script>
<script src="//unpkg.com/docsify@4/lib/docsify.min.js"></script>
<script src="//unpkg.com/docsify-mindmap/dist/docsify-mindmap.min.js"></script>
</body>
</html>
# Plain text
Step two
Open a markdown file and write:
```mindmap
root
topic1
subtopic
topic2
subtopic
```
It will present the mind map structure (what does it look like or see for yourself Official website (bar)
Wait a minute, do you think this structure is very similar to markdown?
Xmind can be converted to json, but the conversion is too complex. You must wrap the dictionary string reasonably..
Step 3
Export your mind map from Xmind as markdown. I can do it on the iPad when I try, but I charge money on the computer
It looks like this:
## Chp 3 Obtaining Target Genes
### From genomic/plasmid DNA
#### Genome: isolation
##### Grinding + cracking liquid
###### Adsorption column + rinsing elution
###### Phenol + chloroform, alcohol precipitation
#### Plasmid: alkaline isolation
##### Resuspension
###### Glucose, RNase, EDTA
##### Lysis
###### NaOH, SDS
##### Neutralization
###### High salt HAc buffer
###### Plasmid renaturation
### From genomic/cDNA library
#### Library
##### Into fragments, into vectors, into host
##### Complete, stable
###### capacity*clone number
#### Genome
(gDNA)
#####
##### Steps
###### Extract genomic DNA
###### Partially digestion
* Choose enzyme and time
* Pick fragments whose length fit the vector
###### Insert into vector and transform
###### Screening
* With nucleic acid probes/antibody
(Replicate to NC membrane)
* With resistance gene
##### gDNA lib
Signigicance
###### Stable storage
###### Enrichment and amplification
###### Genome profiling and find unknown genes
#### cDNA
##### Steps
###### Extract mRNA
* Affinity chromatography: oligo-dT(poly a tail) cellulose
###### Synthesis of cDNA
* template chain
* Oligo dT primer
* Random primer
* Gene specific primer
* 2nd strand
* method1
* remove RNA
* RNase H
* coding chain
* 3' folds back as primer
* S1 nuclease cut hairpin
* method2
* No removal
* Gene specific reverse primer
* Or add poly C
oligo-dG as primer
Step 4
Observe the characteristics of the code and write the program to convert it into the required format.
Strategy: the designer should take the empty two as a tab. We replace the text and replace one # with two spaces. It's actually very simple
This example includes all the problems needing attention:
- There is no indentation in chapter, so two should be deleted from each line#
- After all # are completed, there is a space, which shall be deleted together
- *Is a seven level title, which is replaced with seven before processing#
- Use the four space indent below the seven level title, so replace the four spaces with one#
- In some places, I use forced line feed and need to return the previous line
So the Python code is as follows:
def parse_md(path):
# read file
with open(path + '.md', 'r', encoding='utf-8') as f:
lines = f.readlines()
# process, to be consistent
for i in range(len(lines)):
if '*' in lines[i]:
lines[i] = lines[i].replace('*', '#######') # *It's a seven level title
if ' ' in lines[i]:
lines[i] = lines[i].replace(' ', '#') # Suppose there are no more such four spaces
if lines[i][0] != '#' and lines[i][0] != '*': # Processing forced line breaks
lines[i-1] = lines[i-1].strip('\n') + ' ' + lines[i] # Remove the newline from the previous line and spell this line
lines[i] = '' # Clear this line
# transformation
with open(path + '.txt', 'w') as f:
for line in lines:
l = line.replace('## ', '').replace('�', '')
# If it is separated by chapter, delete two#, adjust as needed; And delete possible garbled code
f.write(l.replace('#', ' ')) # Two spaces
path = 'test' # Don't add it md
parse_md(path)
For example, after the above example is converted
Chp 3 Obtaining Target Genes
From genomic/plasmid DNA
Genome: isolation
grind+Pyrolysis fluid
Adsorption column+Rinsing elution
phenol+Chloroform, alcohol precipitation
Plasmid: alkaline isolation
Resuspension
Glucose, RNase, EDTA
Lysis
NaOH, SDS
Neutralization
High salt HAc buffer
Plasmid renaturation
From genomic/cDNA library
Library
Into fragments, into vectors, into host
Complete, stable
capacity clone number
Genome (gDNA)
Steps
Extract genomic DNA
Partially digestion
Choose enzyme and time
Pick fragments whose length fit the vector
Insert into vector and transform
Screening
With nucleic acid probes/antibody (Replicate to NC membrane)
With resistance gene
gDNA lib Signigicance
Stable storage
Enrichment and amplification
Genome profiling and find unknown genes
cDNA
Steps
Extract mRNA
Affinity chromatography: oligo-dT(poly a tail) cellulose
Synthesis of cDNA
template chain
Oligo dT primer
Random primer
Gene specific primer
2nd strand
method1
remove RNA
RNase H
coding chain
3' folds back as primer
S1 nuclease cut hairpin
method2
No removal
Gene specific reverse primer
Or add poly C
oligo-dG as primer
The results are saved in the same name txt file, copy it to your document, the code type is mindmap, and you can see it after deployment.
In addition, we also found some features of this plug-in
- The opening space doesn't matter and will be omitted
- Chinese is still supported
- Only the simplest mind mapping structure is supported, and beautification is also general..
I'll arrange other courses later!