BinPacker specifications

Information


Unique identifier OMICS_11199
Name BinPacker
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.0
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Xiuzhen Huang

Publication for BinPacker

BinPacker citations

 (2)
library_books

Comparative Genomics of Color Morphs In the Coral Montastraea cavernosa

2017
Sci Rep
PMCID: 5700045
PMID: 29167578
DOI: 10.1038/s41598-017-16371-9

[…] version 0.32 (https://goo.gl/vlHjeV) following recommendations from. Reads from each color morph were assembled together to create a joint assembly of coral transcripts using Trinity version 2.20 and BinPacker version 1.0.0, on a Linux workstation with 64 cores and 1Tb RAM (https://goo.gl/Q8pWUu). We used flags to indicate the stranded nature of sequencing reads and set the maximum allowable physi […]

library_books

Whole RNA Sequencing and Transcriptome Assembly of Candida albicans and Candida africana under Chlamydospore Inducing Conditions

2017
Genome Biol Evol
PMCID: 5553385
PMID: 28810711
DOI: 10.1093/gbe/evx143

[…] ckle; last accessed July 28, 2017) to remove adapters and sequences with low Phred-scores (cutoff: ≥20).For assembling whole transcriptomes, we used two different strategies: a de novo approach using BinPacker version 1.0 () and a reference based assembly using StringTie version 1.3.0 () with two different alignment programs: HISAT2 version 2.0.4 () and Subjunc version 1.22.3 (). Both HISAT2 and S […]

BinPacker institution(s)
School of Mathematics, Shandong University, Jinan, China; High Performance Computing Center, University of Arkansas, Fayetteville, AR, USA; Crop, Soil, and Environmental Sciences, University of Arkansas, Fayetteville, AR, USA; Department of Computer Science, Arkansas State University, Jonesboro, AR, USA
BinPacker funding source(s)
This work was funded by National Natural Science Foundation of China with codes 61432010, 61272016 and 31571354; National Science Foundation with number 1553680; National Center for Research Resources with number P20RR016460; and National Institute of General Medical Sciences with number P20GM103429.

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