hbc/giab_remap_38

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Created over 9 years ago
Updated about 9 years ago

hbc/giab_remap_38

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Remap the Genome in a Bottle NA12878 validation variant calls to human genome build 38

knowledgebase

recipes that save time

bcbioRNASeq

R package for bcbio RNA-seq analysis.

projects

In-progress projects at Harvard School of Public Health Bioinformatics Core

edX

Course materials for the edX Data Analysis for Genomics

bcbioSingleCell

R package for bcbio single-cell RNA-seq analysis.

tinyatlas

A tiny cell atlas for commonly sequenced organisms.

NGS_Data_Analysis_Course

tutorials

This repo contains tutorials for different NGS analysis methods

NGS-Data-Analysis-long-course

revigoR

Scripts for accessing revigo gene ontology plots from R

NGS_Data_Analysis_Summer2016

Materials for NGS Data Analysis Course Summer 2016

li_hiv

HIV integration project

hbcABC

Compilation of rmarkdown templates for bioinformatics analysis

Intro-to-Unix

Workshop for Intro to Unix

methods

drosophila-midgut-analysis

Analysis scripts for 'A cell atlas of the adult drosophila midgut'

tumor-only-prioritization

Validate prioritization of tumor-only variant calling

johnson_rnaseq

Results for the MJ RNA-seq experiment

Intro-to-R-extended

Intro to R materials for 6 hour workshop

novitsky_hiv

HIV quality control, assembly and minority detection

bcbioBase

Base functions for bcbio R packages.

CHBUtils

Utility functions in R

poulopoulos-growthcone-rnaseq

Poulopoulos growthcone RNA-seq project analysis

isaac-comparison

Compare iSAAC speed and quality to bwa + GATK

schaeffer-miRNA

dc_2016_04

Data Carpentry materials for Jackson Labs workshop

bonventre-indrop

wu_hiv_pooled_dr

Call HIV minority variants and annotate with drug resistance mutations

GABE_course

Hands on Ensembl session for GABE course 2016

breakfast

Details about the monthly breakfast hosted by the Harvard Chan Bioinformatics Core

li_hiv_call3

fabio-splicing

Intro-to-R

Intro to R course materials for BCMP retreat 2015

DGE_workshop

One day class to perform DE analysis in R. Follow-up for students who took the R course

StemCellCommons

Stem cell bioinformatics

Intro-to-R-QMB

msteinhauser_starvation_timeseries

code for paper figures and analysis

tailseq-tool-daley

code used for analysis of TailSeq data generated at Daley's group

kobzik_macrophage

RNA-seq analysis for macrophage sequencing

mammoth_code

python package to find African elephant genes into mammoth assembled genome

rowe2020_indrop_citeseq_hbc03948

Molecular-convergence-between-Down-syndrome-and-Fragile-X-syndrome-hPSCs

Code repository for the paper "Molecular convergence between Down syndrome and Fragile X syndrome identified using human pluripotent stem cell models"

overmoyer2021_RNAseq_analysis_of_inflammatory_breast_cancer_hbc04141

hbc_kim_ATACseq_BRG1_hbc04466

ATACseq of BRG1

HBC04813_Schatton_mouse_ATACseq

MouseKidneyFibrOmics

Repository with the analysis of two kidney fibrosis models in mouse