decodebiology Goto Github PK

bio-playground

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

bioinfotutorials

checkphredscale

Check the Phred Scale quality of sequencing files

complexitybystartposition

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

d3-sankey

Visualize flow between nodes in a directed acyclic network.

decodebiology.github.io

Profile Santhilal Subhash

extract_promoter_sequence

freebayes

Bayesian haplotype-based polymorphism discovery and genotyping.

genescf_inactive

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

gganatogram

Create anatograms using ggplot2

interproscan

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

mount_android_ubuntu

Mount your android device on Ubuntu

multiqc_testdata

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

qbrc-somatic-pipeline

QBRC Somatic Mutation Calling Pipeline

rpkm_rnaseq_count

RPKM for RNASeq counts

rtsne

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

salmontools

Useful tools for working with Salmon output

scanpy

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

sccatch

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

shinyextras

supplementary-code

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.

tspex

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