decodebiology

bio-playground

miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.

CheckPhredScale

Check the Phred Scale quality of sequencing files

ComplexityByStartPosition

Creates a rarefaction curve to measure complexity in RNA Seq data using start position

geneSCF_inactive

GeneSCF moved to a dedicated GitHub page, https://github.com/genescf/GeneSCF

rpkm_rnaseq_count

RPKM for RNASeq counts

ShinyExtras

TransExtract_betaV1.2

Extract Transitions from PARCLIP data. This is beta version, this can be improved by including more description about the results and also with graphical visualization.

GeneSCF

Gene Set Clustering based on Functional annotation

decodebiology/geneSCF_inactive

GeneSCF moved to a dedicated GitHub page, https://github.com/genescf/GeneSCF

decodebiology/rpkm_rnaseq_count

RPKM for RNASeq counts

decodebiology/bio-playground

miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.

decodebiology/ComplexityByStartPosition

Creates a rarefaction curve to measure complexity in RNA Seq data using start position

decodebiology/CheckPhredScale

Check the Phred Scale quality of sequencing files

decodebiology/d3-sankey

Visualize flow between nodes in a directed acyclic network.

decodebiology/freebayes

Bayesian haplotype-based polymorphism discovery and genotyping.

decodebiology/TransExtract_betaV1.2

Extract Transitions from PARCLIP data. This is beta version, this can be improved by including more description about the results and also with graphical visualization.

decodebiology/tspex

Python package for calculating tissue-specificity metrics from gene expression data.

decodebiology/ShinyExtras

decodebiology/bioinfotutorials

decodebiology/decodebiology.github.io

Profile Santhilal Subhash

decodebiology/extract_promoter_sequence

decodebiology/gganatogram

Create anatograms using ggplot2

decodebiology/interproscan

Automatically exported from code.google.com/p/interproscan

decodebiology/mount_android_ubuntu

Mount your android device on Ubuntu

decodebiology/MultiQC_TestData

Test data for MultiQC. See https://github.com/ewels/MultiQC

decodebiology/QBRC-Somatic-Pipeline

QBRC Somatic Mutation Calling Pipeline

decodebiology/rtsne

An R package for t-SNE (t-Distributed Stochastic Neighbor Embedding)

decodebiology/SalmonTools

Useful tools for working with Salmon output

decodebiology/scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

decodebiology/scCATCH

Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

decodebiology/SuperMice_DietProject

decodebiology/Supplementary-Code

decodebiology/Vestibular_schwannoma_2025

RNA-seq analysis