IMAP – Chromosome-level Genome Assembler Combining multiple de novo Assemblies

IMAP

:: DESCRIPTION

IMAP (the integrative meta-assembly pipeline) is a new software pipeline to build chromosome-level genome sequence assemblies by generating and combining multiple initial assemblies using three de novo assemblers from short-read sequencing data.

::DEVELOPER

Bioinformatics Laboratory, Konkuk University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux
Java
Python
Perl

:: DOWNLOAD

IMAP

:: MORE INFORMATION

Citation

PLoS One. 2019 Aug 27;14(8):e0221858. doi: 10.1371/journal.pone.0221858. eCollection 2019.
Integrative Meta-Assembly Pipeline (IMAP): Chromosome-level genome assembler combining multiple de novo assemblies.
Song G, Lee J, Kim J, Kang S, Lee H, Kwon D, Lee D, Lang GI, Cherry JM, Kim J.

Comb-p 0.50.2 – Combining, Analyzing, Grouping and Correcting Spatially Correlated P-values

Comb-p 0.50.2

:: DESCRIPTION

comb-p is a command-line tool and a python library that manipulates BED files of possibly irregularly spaced P-values and (1) calculates auto-correlation, (2) combines adjacent P-values, (3) performs false discovery adjustment, (4) finds regions of enrichment (i.e. series of adjacent low P-values) and (5) assigns significance to those regions.

::DEVELOPER

Katerina Kechris , Brent Pedersen

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Windows/Linux
Python

:: DOWNLOAD

Comb-p

:: MORE INFORMATION

Citation

Bioinformatics. 2012 Nov 15;28(22):2986-8. doi: 10.1093/bioinformatics/bts545. Epub 2012 Sep 5.
Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values.
Pedersen BS1, Schwartz DA, Yang IV, Kechris KJ.

KeyPathwayMiner 5.0.1 – Combining networks with OMICS data

KeyPathwayMiner 5.0.1

:: DESCRIPTION

KeyPathwayMiner is not limited to analyses of single omics data sets, e.g. gene expression, but is able to directly combine several different omics data types.

::DEVELOPER

Baumbach lab

:: SCREENSHOTS