Pinned Repositories
Accessing_public_genomic_data
Tutorials on accessing public reference and genomic data
ads1-notebooks
Copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing
APALYZER-test
APALYZER-test
BMDSI_class_2024
Biomedical Data Science Initiative class - 2024
oneliners
Useful bash one-liners for bioinformatics.
pyGTF
Parse GTF/GFF, Fasta/Fastq file, convert gene annotation format and extract sequence
tabletools
Miscellaneous scripts for manipulating table files
nanoplen
Package for the analysis of the nanopore read lengths, e.g. to calculate the significant differential transcript length.
samutils
Standalone utility scripts for manipulating SAM files
tabletools
Miscellaneous scripts for manipulating table files
dar19's Repositories
dar19/pyGTF
Parse GTF/GFF, Fasta/Fastq file, convert gene annotation format and extract sequence
dar19/ads1-notebooks
Copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing
dar19/awesome-deepbio
A curated list of awesome deep learning applications in the field of computational biology
dar19/awesome-single-cell
List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
dar19/Bob_Ross_Paintings
Dataset: All Bob Ross paintings
dar19/oneliners
Useful bash one-liners for bioinformatics.
dar19/ribothrypsis
Key tools for Ribothrypsis analysis
dar19/Complete-Python-3-Bootcamp
Course Files for Complete Python 3 Bootcamp Course on Udemy
dar19/CSAMA
Course material for CSAMA: Statistical Data Analysis for Genome Scale Biology
dar19/Deep_learning_examples
Examples of using deep learning in Bioinformatics
dar19/DNA-Sequencing-Classifier
dar19/genome4d
Study the genome structure and function
dar19/idep
Integrated Differential Expression and Pathway analysis
dar19/learning_sequence_motifs
"Representation Learning of Genomic Sequence Motifs with Convolutional Neural Networks" by Peter K. Koo and Sean R. Eddy
dar19/ML_DS_courses
Tutorials on Machine Learning and Data Science online courses
dar19/NGS_Data_Analysis_Course
dar19/pdfminer
Python PDF Parser
dar19/pyliftover
Pure-python implementation of UCSC liftOver genome coordinate conversion
dar19/pysradb
Package for fetching metadata and downloading data from SRA
dar19/pysster
pysster: Learning Sequence And Structure Motifs In Biological Sequences Using Convolutional Neural Networks
dar19/pysvmlight
Python wrapper around the SVMLight support vector machine library, implemented in Cython
dar19/r-bootcamp-2018
Materials for the 2018 R bootcamp at UC Berkeley. See below (under the listing of files) for information about the bootcamp, including logistics, how to get the course content, and how to install the software you need for the bootcamp on your laptop.
dar19/TAPAS
dar19/tensorflow_tutorial_genomics
A collection of TensorFlow tutorials to analyze genomics datasets
dar19/Zika-RNAseq-Pipeline
An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study