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Commit ac0c1f58 authored by Blaise Li's avatar Blaise Li
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More libraries.

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...@@ -42,6 +42,13 @@ I haven't used it yet. ...@@ -42,6 +42,13 @@ I haven't used it yet.
URL: <https://github.com/yglukhov/nimpy> URL: <https://github.com/yglukhov/nimpy>
### beautifulsoup
To parse XML formats.
URL: <https://www.crummy.com/software/BeautifulSoup/>
## Data analysis ## Data analysis
### scipy ### scipy
...@@ -52,7 +59,7 @@ URL: <https://docs.scipy.org/doc/scipy/index.html> ...@@ -52,7 +59,7 @@ URL: <https://docs.scipy.org/doc/scipy/index.html>
### numpy ### numpy
Like with scipy, I usually use it in combination with Like with scipy, I usually use it in combination with other libraries that depend on it.
URL: <https://numpy.org/> URL: <https://numpy.org/>
...@@ -64,10 +71,14 @@ URL: <https://pandas.pydata.org/> ...@@ -64,10 +71,14 @@ URL: <https://pandas.pydata.org/>
### scikit-learn ### scikit-learn
General machine learning.
URL: <https://scikit-learn.org/stable/> URL: <https://scikit-learn.org/stable/>
### matplotlib ### matplotlib
Graphics.
URL: <https://matplotlib.org/> URL: <https://matplotlib.org/>
### seaborn ### seaborn
...@@ -153,6 +164,19 @@ Wrapper around bedtools, to work with genomic intervals. ...@@ -153,6 +164,19 @@ Wrapper around bedtools, to work with genomic intervals.
URL: <https://daler.github.io/pybedtools/> URL: <https://daler.github.io/pybedtools/>
### deeptools
Various tools to display "deep" sequencing data. There is a Python API.
URL: <https://deeptools.readthedocs.io/en/develop/index.html>
### pybigwig
To handle bigwig files.
URL: <https://github.com/deeptools/pyBigWig>
### biotite ### biotite
I used some of the tools it provides to display sequences, with colours: I used some of the tools it provides to display sequences, with colours:
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