Path 02 · 53 Lessons · 3 Modules

Python Data Stack

An intensive progression through the scientific Python data stack. Learners develop proficiency with multidimensional array operations and broadcasting in NumPy, advanced DataFrame manipulation in pandas, and publication-quality figure generation using Matplotlib and Seaborn.

Start PathEnter

By the End

Implement vectorized numerical calculations using NumPy broadcasting and array operations
Load, filter, merge, and reshape complex biological datasets with pandas
Design clear, reproducible scientific figures using Matplotlib and Seaborn

Progress

0/53

Gene Expression Count MatrixTab-separated expression data (counts.tsv)

gene     control_1  control_2  treated_1  treated_2
TP53          1204       1150       2310       2402
EGFR          3021       2988       1502       1477
MYC            150        143        900        945

NumPy

High-performance numerical computing utilizing multidimensional arrays, vectorized operations, broadcasting semantics, and memory layout optimization.

18 lessons · 18 graded

Array Creation4 Axes and Reductions4 Boolean Masking4 Broadcasting4 Fancy Indexing4 Indexing and Slicing4 Linear Algebra with NumPy4 Memory Layout and Strides4 Missing Data in NumPy4 NumPy File IO4 NumPy Random Generator4 NumPy dtypes4 Reshaping and Stacking4 Structured Arrays4 Vectorization4 Views vs Copies4 NumPy ndarray4 Universal Functions (ufuncs)4

Pandas

Tabular data analysis and manipulation using DataFrames, multi-level indexing, relational joins, grouped aggregations, and reshaping transformations.

21 lessons · 21 graded

Plotting

Publication-quality scientific visualization leveraging the Matplotlib object-oriented architecture and Seaborn statistical graphing interfaces.

14 lessons · 14 graded

Axes Styling and Annotation4 Colormaps and Color4 Common Plot Types4 Faceting4 Figure and Axes4 Figure-Level vs Axes-Level Functions4 Matplotlib Artists4 Saving Figures3 Statistical Estimation in Seaborn4 Subplots and Layout4 Pyplot vs Object-Oriented API3 rcParams and Style Sheets3 Seaborn Themes and Palettes4 Seaborn Objects Interface4

Next PathBioinformatics Core