Das Lab (@DasLab)
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DasLab

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Top repositories

1

arnie

Python utility to estimate, compare, and reweight RNA energetics across many secondary structure algorithms.
Python
96
star
2

KaggleOpenVaccine

Jupyter Notebook
53
star
3

draw_rna

Draw RNA secondary structures in python.
Jupyter Notebook
36
star
4

RiboGraphViz

Visualize global properties of large RNAs using GraphViz force-directed layout.
Jupyter Notebook
20
star
5

openvaccine-CE-analysis

Data and analysis of capillary electrophoresis data measuring mRNA degradation rates for Combinatorial Optimization of mRNA paper, Das and Barna labs (2020).
Jupyter Notebook
10
star
6

FARFAR2-SARS-CoV-2

Models of SARS-CoV-2 genomic elements generated by FARFAR2
8
star
7

rna_benchmark

Python scripts & reference data for Rosetta RNA modeling benchmarks
Scala
7
star
8

Server_RMDB

RNA Mapping Database
JavaScript
4
star
9

zetafold

Sandbox for secondary structure modeling
Python
3
star
10

CASP15_RNA_EM

Jupyter Notebook
3
star
11

SARSCoV2_Secstruct_Cons

Python
3
star
12

FARFAR2-Apo-Riboswitch

Models of apo riboswitches generated by FARFAR2
3
star
13

Server_Primerize

Primerize PCR Assembly Design Server
HTML
2
star
14

FARFAR2_modeling_examples

Modeling examples for FARFAR2
Scala
2
star
15

CDSfold_SU

Update CDSfold to modern C++ while maintaining performance
C++
2
star
16

ubr

Ultraplex-Bowtie2-RNAframework pipeline for analysis of SHAPE-MaP/DMS-MaP big library runs
MATLAB
2
star
17

casp-rna

Pipeline used to assess RNA in CASP15
Jupyter Notebook
2
star
18

smiFISH-Probes

Jupyter Notebook
1
star
19

RNA-deg-rates

Degradation rates for RNA molecules compiled during Stanford OpenVaccine research, 2020-2021
MATLAB
1
star
20

3-UTR-Quantification

Jupyter Notebook
1
star
21

FARFAR2-Puzzles-Clusters

Cluster centers for the 21 benchmark cases in FARFAR2-Puzzles
1
star
22

Coronavirus_SL5_3D

Accompanying the publication: Tertiary folds of the SL5 RNA from the 5’ proximal region of SARS-CoV-2 and related coronaviruses
Jupyter Notebook
1
star
23

Server_Daslab

Das Lab Website
HTML
1
star