Pinned Repositories
ANOVA_gene_expression
ANOVA for differential gene expression analysis.
bcftools
This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html
bedtools2
bedtools - the swiss army knife for genome arithmetic
blood_source_classifier
Training and validating a logistic regression classification model to predict acute myeloid leukemia blood source (bone marrow vs. peripheral blood) from gene expression data.
bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
ClassificaIO
ClassificaIO is a Python package that provides a graphical user interface, interactive point-and-click, for machine learning algorithms from scikit-learn.
HIV_pipeline
End-to-End computational pipeline for nationwide HIV outbreak monitoring.
oxford_nanopore_simulation
Oxford Nanopore Technology virus detection simulation code and data for manuscript.
sequencing_read_generator_algorithm
Algorithm takes a string of nucleic acid and returns a list of sequence reads (i.e. fragments) while applying the hypergeometric probability distribution.
sex_classifier
Training and validating a logistic regression classification model to predict acute myeloid leukemia patients sex (male vs. female) from gene expression data.
raeufroushangar's Repositories
raeufroushangar/ANOVA_gene_expression
ANOVA for differential gene expression analysis.
raeufroushangar/bcftools
This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html
raeufroushangar/bedtools2
bedtools - the swiss army knife for genome arithmetic
raeufroushangar/blood_source_classifier
Training and validating a logistic regression classification model to predict acute myeloid leukemia blood source (bone marrow vs. peripheral blood) from gene expression data.
raeufroushangar/bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
raeufroushangar/ClassificaIO
ClassificaIO is a Python package that provides a graphical user interface, interactive point-and-click, for machine learning algorithms from scikit-learn.
raeufroushangar/HIV_pipeline
End-to-End computational pipeline for nationwide HIV outbreak monitoring.
raeufroushangar/oxford_nanopore_simulation
Oxford Nanopore Technology virus detection simulation code and data for manuscript.
raeufroushangar/sequencing_read_generator_algorithm
Algorithm takes a string of nucleic acid and returns a list of sequence reads (i.e. fragments) while applying the hypergeometric probability distribution.
raeufroushangar/sex_classifier
Training and validating a logistic regression classification model to predict acute myeloid leukemia patients sex (male vs. female) from gene expression data.
raeufroushangar/DifferentialNetworks
raeufroushangar/disease_classifier
Training, validating, and testing a KNN classification model to predict acute myeloid leukemia disease state (aml vs. healthy) from gene expression data.
raeufroushangar/GFPGAN
GFPGAN aims at developing Practical Algorithms for Real-world Face Restoration.
raeufroushangar/manuals
This directory contains the user manual and supplementary data files for ClassificaIO.
raeufroushangar/mathiomica
MathIOmica is a Mathematica package for omics data analyses
raeufroushangar/MathIOmica-MSViewer
MathIOmica-MSViewer is a standalone graphical user interface for mass spectrometry data and is written in the Wolfram Language for Mathematica.
raeufroushangar/multiple_sequence_alignment
Run muscle for multiple sequence alignment.
raeufroushangar/samtools
Tools (written in C using htslib) for manipulating next-generation sequencing data
raeufroushangar/seq_toolkit
Various scripts for bioinformatics analysis pipeline.
raeufroushangar/vcftools
A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.