Pinned Repositories
abismal-with-ksw
A working version of abismal that uses ksw.c for local alignments
abismal_benchmark
A repository to reproduce the comparisons performed in the paper "Fast and memory-efficient mapping of short bisulfite sequencing reads using a two-letter alphabet"
docks_dot_cpp
A C++ implementation of the DOCKS algorithm from Orenstein et al 2016
Lindstrom_et_al_H17w_Data_Analysis
Data analysis for the paper "Progressive recruitment of mesenchymal progenitors reveals a time-dependent process of cell fate acquisition in mouse and human nephrogenesis"
methylation-ui
A web interface to fetch DNA methylation datasets from SRA and facilitate obtaining high-quality bisulfite sequencing data
phylogenetic-by-genome
Program to count k-mers in FASTA references to estimate pairwise phylogenetic distances
screamr
An R package for downstream analysis of scRNA-Seq data
seqdiff
a program to estimate the difference between data from reads in a SAM file to its reference genome
abismal
Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
falco
A C++ drop-in replacement of FastQC to assess the quality of sequence read data
guilhermesena1's Repositories
guilhermesena1/phylogenetic-by-genome
Program to count k-mers in FASTA references to estimate pairwise phylogenetic distances
guilhermesena1/abismal_benchmark
A repository to reproduce the comparisons performed in the paper "Fast and memory-efficient mapping of short bisulfite sequencing reads using a two-letter alphabet"
guilhermesena1/Lindstrom_et_al_H17w_Data_Analysis
Data analysis for the paper "Progressive recruitment of mesenchymal progenitors reveals a time-dependent process of cell fate acquisition in mouse and human nephrogenesis"
guilhermesena1/abismal-with-ksw
A working version of abismal that uses ksw.c for local alignments
guilhermesena1/BISC577-HW2
Homework 2 for the BISC-577 course assignment 3
guilhermesena1/Coding-Competitions
Repository for solution to coding competitions & Project Euler problems
guilhermesena1/docks_dot_cpp
A C++ implementation of the DOCKS algorithm from Orenstein et al 2016
guilhermesena1/MATH578a-Homeworks
Solutions for the Computational Molecular Biology course
guilhermesena1/methylation-ui
A web interface to fetch DNA methylation datasets from SRA and facilitate obtaining high-quality bisulfite sequencing data
guilhermesena1/screamr
An R package for downstream analysis of scRNA-Seq data
guilhermesena1/seqdiff
a program to estimate the difference between data from reads in a SAM file to its reference genome
guilhermesena1/compbio-algos-in-cpp
Implementation of some algorithms we often see in some computational biology fields: t-SNE, Gaussian Mixture Models, etc.
guilhermesena1/guilhermesena1.github.io
Experiments with Jekyll to write blog posts on GitHub pages.
guilhermesena1/horvath_methylation_age
A repository to try to reproduce the results of Horvath's epigenetic clock study from methylation array data.
guilhermesena1/min-cost-solver
given an array of costs and w, find the subset with minimum cost constrained that 2 indexed positions must be at most w bases apart
guilhermesena1/opengl-game
A C++/OpenGL game for education purposes.
guilhermesena1/writeups
An archive of all my writeups on different RNA-Seq related subjects.