seifudd Goto Github PK

folder-structure-conventions

Folder / directory structure options and naming conventions for software projects

freddie

Freddie: Annotation-independent detection and discovery of transcriptomic alternative splicing isoforms using long-read sequencing

gauss

Gene-set Association analysis Using Sparse Signals

gencode_regions

Extract 3'UTR, 5'UTR, CDS, Promoter, Genes, Introns, Exons from GTF files

genewalk

GeneWalk identifies relevant gene functions for a biological context using network representation learning

getting-started-with-genomics-tools-and-resources

Unix, R and python tools for genomics and data science

gggenomes

A grammar of graphics for comparative genomics

ggside

ggplot2 extension allowing for plotting various geometries as side panels using the ggplot2 API

ggthemeassist

A RStudio addin for ggplot2 theme tweaking

janggu

Deep learning infrastructure for bioinformatics

kraken2

The second version of the Kraken taxonomic sequence classification system

leviosam

Lift-over alignments from variant-aware references

lncrnakb

Scripts for analyzing data displayed and deposited on the long non-coding RNA knowledgebase (lncRNAKB)

machine_learning_complete

A comprehensive repository containing 30+ notebooks on learning machine learning!

mcsplicer

megadepth

BigWig and BAM utilities

meth_atlas

methrix

An R :package: for fast and flexible DNA methylation analysis

methylseq_and_rnaseq_cortisol_analysis

Scripts for analyzing MethylSeq and RNASeq cortisol data

microarray-gene-expression-analysis-megaanalysis

Additional files for "Systematic Review of Genome-wide Gene Expression Studies of Bipolar Disorder, Seifuddin et al.

nanomethphase

Methylation Phasing for Nanopore Sequencing

nanosplicer

neural-admixture

og-aws

📙 Amazon Web Services — a practical guide

oneliners

Useful bash one-liners for bioinformatics.

p-20210813-0005_i2s_assay_development_with_illumina

I2S Assay Development with Illumina

pam

Pair Matcher (PaM): a computer model to optimise pairings using demographic and genetic data

pgrscorer

Scripts and files to calculate polygenic/genomic risk scores

pmr

quilt