Course Computatoional Genomics

Materials for course of Computational genomics on School of Electrical Engineering

Getting Started

Clone the repository and run notebooks in Jupyter environment:

jupyter-notebook &

Python 3 from www.python.org
pip3
python3 -m pip install --upgrade pip
python3 -m pip install jupyter
pip3 install pandas
pip3 install nose

The list of project assignments.

Name		Name	Last commit message	Last commit date
Latest commit History 36 Commits
notebooks		notebooks
LICENSE		LICENSE
Lesson_01_Genome_Informatics.pdf		Lesson_01_Genome_Informatics.pdf
Lesson_02_Exact_String_Matching.pdf		Lesson_02_Exact_String_Matching.pdf
Lesson_03_Suffix_Trie_Suffix_Tree_Approximate_Matching.pdf		Lesson_03_Suffix_Trie_Suffix_Tree_Approximate_Matching.pdf
Lesson_04_Burrows_Wheeler_Transform_and_FM_index_Alignment.pdf		Lesson_04_Burrows_Wheeler_Transform_and_FM_index_Alignment.pdf
Lesson_05_Workflows_VC_Cancer.pdf		Lesson_05_Workflows_VC_Cancer.pdf
Lesson_06_Edit_distance_and_dynamic_programming.pdf		Lesson_06_Edit_distance_and_dynamic_programming.pdf
Lesson_06b_Weighted_edit_distance_and_global_alignment.pdf		Lesson_06b_Weighted_edit_distance_and_global_alignment.pdf
Lesson_07_Local_alignment.pdf		Lesson_07_Local_alignment.pdf
Lesson_07b_Bowtie_BLAST.pdf		Lesson_07b_Bowtie_BLAST.pdf
Lesson_08_Genome_Assembly_SCS.pdf		Lesson_08_Genome_Assembly_SCS.pdf
Lesson_08b_OLC_assembly.pdf		Lesson_08b_OLC_assembly.pdf
Lesson_09_DeBruijn_graph_assembly.pdf		Lesson_09_DeBruijn_graph_assembly.pdf
Lesson_09b_Error_correction.pdf		Lesson_09b_Error_correction.pdf
Lesson_09c_Scaffolding.pdf		Lesson_09c_Scaffolding.pdf
README.md		README.md