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dotdotdot

Example vignette for dotdotdot software

drfetools

dynamic Recursive Feature Elimination tools

drfetools_manuscript

manuscript for dRFEtools

expr_shape

Explore expression shapes using recount2 GTEx data

fusion_twas

methods for functional summary-based imputation

genomicstate

Build and access GenomicState objects for use with derfinder tools from sources like Gencode

globus

LIBD Globus Share Endpoints

hallock_biologicalpsychiatry_2020

hallock_lfp

Sundry functions for analyzing continuously sampled LFP/EEG data. Used in "Hallock, Wang, & Griffin, 2016, J Neurosci" paper.

humanpilot

Spatial Transcriptomics human DLPFC pilot study part of the spatialLIBD project

imputation_qcs

Pre- and Post-imputation scripts from Danny Chen

insp

Collaboration with INSP researcher Jesus Martinez using recount data

interact

jaffe_onboarding

Jaffe lab onboarding materials

jaffelab

R package with commonly used functions by the Jaffe lab

jhpce_module_config

JHPCE module configuration files

jhpce_module_source

JHPCE module source files

joelptsd_year2

Joel's R01 PTSD Year2 data

libd_stem_timecourse

libd_va_ptsd_rnaseq_4region

lieberinstitute.github.io

public website for LIBD content

living_brain_reanalysis

Re-analyses of the "A study of gene expression in the living human brain" pre-print DOI: https://doi.org/10.1101/2023.04.21.23288916

marchionni_projects

Collaboration with Luigi Marchionni (JHU) and RIKEN with recount2 data

matlab-storm

GUIs and functions for analyzing STORM data in MATLAB

megadepth

R interface to megadepth: BigWig and BAM related utilities

mirna_kit_comparison

oxt_trap_seq

RNA-seq of Oxt neurons

predictdb-tutorial

Tutorial for running the PredictDB pipeline with GEUVADIS data

pths_interneurons

genomics analyses of PTHS mouse models investigating interneuron populations

pths_mouse

Scripts used to analyze RNAseq data from mouse models of Pitt-Hopkins Syndrome related to Phan, Bohlen et al.