Gerben Voshol's repositories
SnpEffWrapper
Takes a VCF and applies annotations from a GFF using SnpEff
pacbam
PaCBAM is a C command line tool for the complete characterization of genomic regions and single nucleotide positions from next-generation sequencing data.
TRUST4
TCR and BCR assembly from RNA-seq data
fermi-lite
Standalone C library for assembling Illumina short reads in small regions
AmpliCI-UMI
AmpliCI with UMI information
cfDNApipe
cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data
atlas-utils
tools for microbiome data analysis
htseq-count
htseq-count test data
stockpredictionai
In this noteboook I will create a complete process for predicting stock price movements. Follow along and we will achieve some pretty good results. For that purpose we will use a Generative Adversarial Network (GAN) with LSTM, a type of Recurrent Neural Network, as generator, and a Convolutional Neural Network, CNN, as a discriminator. We use LSTM for the obvious reason that we are trying to predict time series data. Why we use GAN and specifically CNN as a discriminator? That is a good question: there are special sections on that later.
Stock-Prediction
Technical and sentiment analysis to predict the stock market with machine learning models based on historical time series data and news article sentiment collected using APIs and web scraping.
gerbenvoshol.github.io
Build a Jekyll blog in minutes, without touching the command line.
script-server
Web UI for your scripts with execution management
VERSE
A versatile and efficient RNA-Seq read counting tool
xlsxio
XLSX I/O - C library for reading and writing .xlsx files
tinydir
Lightweight, portable and easy to integrate C directory and file reader
Learning-Lab-C-Library
This library provides a set of basic functions for different type of deep learning (and other) algorithms in C.This deep learning library will be constatly updated
STC
A modern, user friendly, generic, type-safe and fast C99 container library: String, Vector, Sorted and Unordered Map and Set, Deque, Forward List, Smart Pointers, Bitset and Random numbers.
GSprofiler
Command line tool to get g:Profiler results and some plots from a list of significant genes. Forked from https://github.com/UBMI-IFC/easyGprofiler.
bgtf
In-memory/on-disk storage and random accession of GTF file
run-one
A BSD-compatible reimplementation of Ubuntu's run-one
bcbio_validations
Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
C
Collection of various algorithms in mathematics, machine learning, computer science, physics, etc implemented in C for educational purposes.
dgeAnalysis
R package with Shiny application for DGE analysis
GROM
SNV, Indel, SV, CNV detection
bam2fastq
Simple convertor from bam to FASTQ
ampliseq
16S rRNA amplicon sequencing analysis workflow using QIIME2
bedd
tiny yet fully functional text editor for linux, with mouse support and more!
tiny-regex-mod
Single file modification of tiny-regex-c by Kokke