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bamtools

Converter, statistics and coverage from BAM files.

bashtips

Bash tips: useful linux shell tips to save your life

bmx_seq

BMX-Seq: Brain Metastasis Xenograft Sequencing Pipeline

burrows_wheeler_alignment

A python implementation of the Burrows Wheeler Alignment for DNA sequence matching

compose

Source code for KDD 2020 paper COMPOSE: Cross-Modal Pseudo-Siamese Network for Patient Trial Matching.

db-gpt

AI Native Data App Development framework with AWEL(Agentic Workflow Expression Language) and Agents

deeptools

Tools to process and analyze deep sequencing data.

drubcomb

Plots and statistic analyses of high throughput drug screening data.

google-calendar-undo-import

gtftools

Convert GTF file to a comma seperated file (CSV) with the original order of columns and attributes.

handson-ml2

A series of Jupyter notebooks that walk you through the fundamentals of Machine Learning and Deep Learning in Python using Scikit-Learn, Keras and TensorFlow 2.

linux-installation-and-customization

Install and customize a linux system

mixhmm

MIXHMM: a HMM based algorithm to detect copy number aberrations in normal/cancer admixtures.

python_excercise

excises using python

pytrials

Python package that wraps around the ClinicalTrials.gov API

qiime

Quantitative Insights Into Microbial Ecology (QIIME): Official repository for software and unit tests

qiimeworkflow

The workflow and tutorial for microbial sequencing analyses using and extending QIIME.

retext

ReText: Simple but powerful editor for Markdown and reStructuredText

rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2

rnaseq-hpcpipelines

RN

rnaseq-workflow-using-bowtie2-and-deseq2

A RNA-seq workflow using bowtie2 for alignment and deseq2 for differential expression.

snakemake-rnaseq

RNA-seq workflow for Snakemake based on STAR and featureCounts.

survcorr

:exclamation: This is a read-only mirror of the CRAN R package repository. SurvCorr — Correlation of Bivariate Survival Times

taxanomyclassifiers

Methods for Taxonomic Classification of Metagenomic Microbial Sequencing Data

tcga-rnaseq-tutorial

test_markdown

test the markdown format

trialdesign

Cliniacl trial designing.

vase-variant-annotation-with-snpeff-and-exac

VASE: variant annotation with snpEff and ExAC

zhang_science_tm_2021

Computing code for the draft: CECR2 Drives Breast Cancer Metastasis by Suppressing Macrophage Inflammatory Responses