Data Analysis for Genomics, De Bruijn Graph for Genome Assembly.
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Updated
Aug 26, 2023 - Python
Data Analysis for Genomics, De Bruijn Graph for Genome Assembly.
Beginig of the expansion of DBGWAS to a metagenomic scale.
Enumerates Conway's Game of Life's "still lifes" (fixed points) via De Bruijn diagrams. Caml light implementation (boo !)
Computational Biology Assignments
Computational programs and algorithms used to convert information from biochemical experiments (DNA/RNA/Protein/DNA chip/NGS) into useful information and data.
Sparse Binary Relation Representations for Genome Graph Annotation
Data Analysis for Genomics, Euler Path for Genome Assembly.
A program which can assembing .fasta file generated by Next Generation Sequencing(NGS) de novo using De Bruijn Graph Algorithm, and can also choose to map(BLAST) the contigs to a reference sequence
What I learned from Data Structures and Algorithms Specialization on Coursera.
Probabilistic genome assembler based on de Bruijn Graph and profile HMM
Data Analysis for Genomics, De Bruijn Graph Chain Merging Compacting.
Benchmarks and evaluation scripts for the Fulgor index.
Souce code for my MSc Thesis in Computer Science “Nested Marvellous Sequences”
GeneMiner: a tool for extracting phylogenetic markers from next-generation sequencing data
Streaming de Bruijn and Compact de Bruijn Graph Algorithms
Find bubbles in the Colored de Bruijn Graph to reconstruct phylogenetic trees
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