Department of Biosciences and Bioengineering, IIT Guwahati

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FlowPy

CorNetMap

 

 

 

 

 

 

 

 

We are interested in developing tools for analysis of experimental data as well as for theoretical studies.

 

Most of ours tools are developed using C, and Python.

 

We are looking for students interested in further development of FlowPy.

 

 

 

 

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Capabilities of FlowPy:

Data extraction: Extract data of all or selected (gated) cells, as a text file. Use  the text file in other analysis pipeline.

 

Visualization: Draw histogram, Dot-plot, cumulative distribution plot. Save images and image data.

 

Clustering: Perform clustering for higher-dimensional data. Extract data of each clusters.

 

Histogram subtraction: No more manual gating, to identify marker-positive and negative cells. Use histogram subtraction.
 

This tool has been written in Python. You can download the files from FlowPy web page.

 

Following papers have used/cited FlowPy:

1. Hattori K, Ishikawa H, Sakauchi C, Takayanagi S, Naguro I, Ichijo H. EMBO Rep. 2017, 18(11):2067-2078.

2. Hogarth KA, Costford SR, Yoon G, Sondheimer N, Maynes JT. Biochem Genet. November 2017 doi:10.1007/s10528-017-9829-2.

3. Bürglin TR, Henriksson J. FACSanadu: BioRxiv. October 2017, doi:10.1101/201897

4. Kim SH, Lee M, Cho M, Kim IS, Park KI, Lee H, Jang JH. Macromol Biosci. August 2017 doi:
10.1002/mabi.201700148.

5. Castillo-Hair SM, Sexton JT, Landry BP, Olson EJ, Igoshin OA, Tabor
JJ.FlowCal: ACS Synth Biol. 2016, 5(7):774-80.

6. Shin JE, Lin C, Lim HN. Nucleic Acids Res. 2016, 44(9):4460-71.

7. Penterling C, Drexler GA, Böhland C, Stamp R, et al. PLoS One. 2016, 11(6):e0156599.

8. Hodeify R, Selvaraj S, Wen J, Arredouani A et al. J Cell Sci. 2015, 128(16):3143-54.
 

Credit: M. V. Seetha Rama Sastry, Revanth Sai Kumar, Tejas Mehta, Soumitra Saxena, Biplab Bose
Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati

 

CorNetMap

Tool for gene expression correlation analysis

Capabilities of CorNetMap:

1. Read data as tab-delimited text file. Can be used for analysis of any data set beyond gene expression.

2. Capable of both two-dimensional and multidimensional data analysis.

3. Calculate Pearson correlation and cross-correlation for analysis data with phase difference.

4. Generate correlation Heat-map and draws network map.

5. Save correlation data as text file.

Download: From Sourceforge

Documentation of CorNetMap

Video on CorNetMap

Citation: Cite CornetMap as " Khaund, A. Bose, B. CorNetMap. https://sourceforge.net/projects/cornetmap "

Credit: Abhigyan Khaund, Biplab Bose
Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati