collaborativebioinformatics/deeplearningmetagenomics collaborativebioinformatics/deeplearningmetagenomics

  • Stars
    star
    1
  • Language
    Python
  • License
    MIT License
  • Created about 1 year ago
  • Updated about 1 year ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
collaborativebioinformatics/deeplearningmetagenomics
github

collaborativebioinformatics

Reviews

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

Repository Details

Understanding relationships between complex combinations of OTUs and chronic disease

More Repositories

1

STRdust

Python
13
star
2

GeneVar

Jupyter Notebook
12
star
3

Sniphles

Sniphles is a read-based phasing approach for phased variant calling of structural variants.
Python
12
star
4

nibSV

Nim
9
star
5

Disease_subsetting

Colorectal cancer CMs subtyping and personalized medication recommendation based on RNA seq pathway analysis
Jupyter Notebook
9
star
6

GeneVar2

R
8
star
7

SpikeVarTykeVar

Python
8
star
8

omics_clinical_reporting

Clinical_Report_Design_for_omics_integration
HTML
7
star
9

kvar

Python
6
star
10

PhytoKmerCNV

Shell
6
star
11

clinical_SVs

Clinically reportable structural variant calls
R
6
star
12

PRS_reporting

Clinical Reporting of Polygenic Risk Scores
Jupyter Notebook
5
star
13

SVHack_Mendelian

Python
4
star
14

Viewing_expressed_variants

HTML
4
star
15

Disease_Subtyping_2022

Jupyter Notebook
4
star
16

INSeption

Shell
4
star
17

snpReportR

Develop a tool to facilitate genetic reporting of expressed variants
HTML
3
star
18

CNV2SV

Python
3
star
19

RPG_Pikachu

R
3
star
20

CleanSV

R
3
star
21

omics_to_omop

This project will describe how to pass a clinical report format to omop and import data from omop to that report
R
3
star
22

Biobank_notebooks

Notebooks for working with Biobank level data
3
star
23

RNAseq_Dashboard

A dashboard for comparison of RNAseq approaches
JavaScript
3
star
24

coronasv

Python
3
star
25

swagg

Shell
2
star
26

SVeedy

R
2
star
27

Genevar22

R
2
star
28

cov2db

cov2db repo provides necessary scripts for building a database of low frequency variants
Python
2
star
29

CRC-Dashboard

CSS
2
star
30

vcfs2kgs

Jupyter Notebook
2
star
31

GrOMOP

Genome Graphs into OMOPOMICs
HTML
2
star
32

Differential_Expression_and_Variant_Association

aka Environmental effects on risk variants
Jupyter Notebook
2
star
33

genome_and_knowledge_graphs

Genome and Knowledge Graph Theory
2
star
34

kTom

HTML
2
star
35

virussusceptibility

Jupyter Notebook
2
star
36

graphbasedtuning

Jupyter Notebook
2
star
37

SVHack_metagenomics

Everything is bigger in Texas: Pan-Structural Variation hackathon in the Cloud!
Jupyter Notebook
2
star
38

isocomp

Isocomp provides tools to compare any number of transcriptome assemblies (GTF + fasta) from long read RNAseq
HTML
2
star
39

kgbasedvalidation

Jupyter Notebook
2
star
40

SVHack_Pangenomics

2
star
41

SVHack_assemblyvmapping

2
star
42

starfishDiscovery

R
1
star
43

Data_Integration_CoVID

Omopomics-style data integration for HLA, RNAseq and virus sequences
1
star
44

The_X_team

Assembly based validation tool.
Python
1
star
45

NIST-GREX

Jupyter Notebook
1
star
46

beautifulsoup

Web scraping and yes, actual soup recipes
1
star
47

tandemrepeats

Tandem Repeats Team -- 2024 SVCC Hackathon
Jupyter Notebook
1
star
48

CI4CCREFS

Data Management for Transformer Models -- References
1
star
49

VariantSurvival

VariantSurvival a Shiny app/ R package to identify genotype-treatment response
R
1
star
50

SVHack_HG002Mosaic

1
star
51

Disease_subtyping_knowledge_graph

1
star
52

PanOriginSV

Jupyter Notebook
1
star
53

DSVifier

A bioinformatics pipeline for rapidly evaluating variants and identifying causal variants.
C++
1
star
54

expression_and_SNPs_to_clinic

Smooth transition of called variants from RNAseq and expression to the clinic
R
1
star
55

TCRs_to_clinic

Clinically Reportable TCR repertoires
1
star
56

imavirus

1
star