abartlett004
Currently: Bioinformatician II at Harvard T.H. Chan School of Public Health. Formerly: MS Bioinformatics at Johns Hopkins, BS Bioengineering and CS at Harvard.
Somerville, MA
Pinned Repositories
CRISPR_Screen_Pipelining
Selected code from a pipeline I wrote for analyzing NGS data from screens using pooled CRISPR guides. The parts I have included here are the master Snakefile, the Python wrapper script that wrangles the Snakefile's arguments and starts the pipeline, and an R script I created for generating input files for one of the steps of the pipeline.
Longest_Common_Subsequence
An assignment I completed as part of of one of the classes in my bioinformatics master's program. The assignment was to design and implement algorithms to solve the longest common subsequence problem.
Matrix_Multiplication
An assignment I completed as part of one of the classes in my bioinformatics master's program. The assignment was to read in a specifically formatted input file of matrices, perform two different matrix multiplication algorithms, output the product matrix, and compare the efficiencies of the algorithms.
Programming_Assignment_1
A two-part programming assignment I completed
Programming_Assignment_2
Another programming assignment I completed
bcbioR
R package with well defined templates for most common pipelines
bcbioR-test-data
repository to host small dataset for bcbioR package
reproducibility-tools
seqcluster
small RNA analysis from NGS data
smrnaseq
A small-RNA sequencing analysis pipeline
abartlett004's Repositories
abartlett004/CRISPR_Screen_Pipelining
Selected code from a pipeline I wrote for analyzing NGS data from screens using pooled CRISPR guides. The parts I have included here are the master Snakefile, the Python wrapper script that wrangles the Snakefile's arguments and starts the pipeline, and an R script I created for generating input files for one of the steps of the pipeline.
abartlett004/Longest_Common_Subsequence
An assignment I completed as part of of one of the classes in my bioinformatics master's program. The assignment was to design and implement algorithms to solve the longest common subsequence problem.
abartlett004/Matrix_Multiplication
An assignment I completed as part of one of the classes in my bioinformatics master's program. The assignment was to read in a specifically formatted input file of matrices, perform two different matrix multiplication algorithms, output the product matrix, and compare the efficiencies of the algorithms.
abartlett004/Programming_Assignment_1
A two-part programming assignment I completed
abartlett004/Programming_Assignment_2
Another programming assignment I completed