PavlidisLab/ndb PavlidisLab/ndb

  • Stars
    star
    4
  • Rank 3,304,323 (Top 66 %)
  • Language
    Java
  • License
    Apache License 2.0
  • Created about 9 years ago
  • Updated 7 months ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
PavlidisLab/ndb
github

PavlidisLab

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

Web application and database providing a harmonized and comprehensive collection of genetic variants published in peer-reviewed literature.

More Repositories

1

rnaseq-pipeline

RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
Python
21
star
2

Gemma

Genomics data re-analysis
Java
21
star
3

neuroexpresso

πŸ“Š Gene expression in neuroexpresso database
R
17
star
4

markerGeneProfile

Marker gene profile estimation method used in NeuroExpresso manuscript
R
13
star
5

gemma.R

An R wrapper for the Gemma RESTful API
R
10
star
6

neuroExpressoAnalysis

Paper at: http://www.eneuro.org/content/4/6/ENEURO.0212-17.2017
R
10
star
7

bioluigi

Reusable and maintained Luigi tasks to incorporate in bioinformatics pipelines
Python
9
star
8

gemmapy

Python
6
star
9

ermineR

R wrapper for ermineJ
R
6
star
10

transcriptomic_correlates

Materials related to "Transcriptomic correlates of electrophysiological and morphological diversity within and across neuron types"
Jupyter Notebook
6
star
11

baseCode

Data structures, math and statistics tools, and utilities that are often needed across projects.
Java
5
star
12

rdp

Researcher Gene Registry. Originally developed for the Canadian Rare Disease Models & Mechanisms Network
Java
5
star
13

GemmaDE

Discover biological conditions associated with differential gene expression by compiling information from >10,000 published experiments
R
4
star
14

aspiredb

ASPIREdb is a web-based software system for the analysis of genomic variants (CNVs, SNVs, and Indels) and phenotypes. Potential users include researchers who are trying to understand the relationships between discovered variants and phenotypes.
JavaScript
4
star
15

GemBrow

The Gemma Browser
Vue
3
star
16

VariCarta

Repository for VariCarta data releases
2
star
17

CMap-Evaluation

Evaluation of CMap 1 (Lamb et al. 2006) and CMap 2/LINCS-L1000 (Subramanian et al. 2017)
R
2
star
18

patchSeqQC

Quality control for patch-seq data using marker genes
R
2
star
19

gotrack

Web-based system and database that provides access to historical records and trends in the Gene Ontology and GO annotations
Java
1
star
20

Gemma-rest-web

Gemma REST API interactive documentation website
HTML
1
star
21

CellularComposition

Material for paper "Untangling the effects of cellular composition on coexpression analysis", Farahbod&Pavlidis 2020
MATLAB
1
star
22

TGEMO

The Gemma Ontology
Python
1
star
23

SFARI_project

HTML
1
star
24

AlzMouseModelMeta

AD_mouse_model_project
R
1
star
25

rnaseq-variant-pipeline

Pipeline for calling and analyzing variants from RNA-Seq data
Python
1
star
26

matrix2png

C
1
star