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01.inhouse.functions

aianalyzer

A collection of Perl and C/C++ programs I wrote for analyzing allelic imbalance sites in sequenced human transcriptome.

awesome-chatgpt-prompts

This repo includes ChatGPT prompt curation to use ChatGPT better.

backbonomist

Python pipeline to analyse conserved genome regions

basilisk

CASA data-reduction pipeline written in Python

biocluster-modules

Modules for describing software environment on biocluster

bioinfo

bioinformatics scripts written in Python

bioinformatics_scripts

bioinformatics scripts written in python or R

bioutils

Python scripts for miscellaneous bioinformatics stuff.

cs295-python-bioinformatics

Winter 2012 course on python for bioinformatics.

fingerpuppet

fingerpuppet is intended to be (I have grandiose visions) a complete RNA-Seq analysis package. It is based on Python, and uses GAMS and R as well. fingerpuppet takes the raw output of the alignment of RNA-Seq data in the form of BAM files and performs quantification and differential statistic analysis on the data.

fq_free

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free

free proxy node configuration, let programmers from China freely access the global network. Regular updates every 4 hours.

fzsheffield

Creating a python pipeline to work with next generation snp data

genome_reseq_scripts

grape.pipeline.runner

Console script for running Grape RNA-Seq pipelines

gscores

gsignatures

Calculate normalized enrichment score for gene sets. To overcome the dropout effects in scRNA-seq data, imputate gene ranking via gene co-expression modules detected by affinity propagation (AP)

gsinghal_python_src

Python Code, Machine Learning, Cancer Genomics, DNA/RNA Sequence Analysis

icefoxx.github.io

blog for zhangq

kmer

Programs to perform kmer analysis (such as tetramers)

methylmaps

Data analysis pipeline for the Methyl-MAPS method

mg-pipeline

Metagenomics data munger - python implementation

ngs-pipeline

NGS pipeline based on the python module ruffus

nussinov

Python implementation of Nussinov algorithm for RNA folding

pepr-chip-seq

Automatically exported from code.google.com/p/pepr-chip-seq

py_mbl_sequencing_pipeline

py_mbl_sequencing_pipeline

python-bwa-wrapper

Script for calling bwa on gencode rna-seq data

python-codes-for-rnaseq

All tools that help me work with RNAseq data.

quantumseqquery