{{Short description, Structural biology software Bsoft is a collection of programs and a platform for development of software for image and molecular processing in structural biology. Problems in structural biology are approached with a highly modular design, allowing fast development of new algorithms without the burden of issues such as file I/O. It provides an easily accessible interface, a resource that can be and has been used in other packages. Several workflows such as for single particle analysis and tomography are supported with parameter exchange as well as the ability to do distributed processing across heterogeneous clusters of computers.

Technical details

Version: 1.8.8 OS support:

Unix Unix (; trademarked as UNIX) is a family of multitasking, multiuser computer operating systems that derive from the original AT&T Unix, whose development started in 1969 at the Bell Labs research center by Ken Thompson, Dennis Ritchie, and ot ...

(Mac OS X, IRIX, Linux, AIX, Solaris, Tru64),

OpenVMS OpenVMS, often referred to as just VMS, is a multi-user, multiprocessing and virtual memory-based operating system. It is designed to support time-sharing, batch processing, transaction processing and workstation applications. Customers using Ope ...

Format support: * Images: BioRad, Brix, CCP4, Digital Instruments, Digital Micrograph, DSN6, EM, Goodford, GRD, Imagic,

JPEG JPEG ( ) is a commonly used method of lossy compression for digital images, particularly for those images produced by digital photography. The degree of compression can be adjusted, allowing a selectable tradeoff between storage size and imag ...

, MFF, Image Magick,

MRC MRC may refer to Government * Medical Research Council (United Kingdom) * Medical Reserve Corps, a US network of volunteer organizations * Municipalité régionale de comté (regional county municipality), Quebec, Canada * Military Revolutionar ...

, PIC, PIF, PNG, Spider, Suprim,

TIFF Tag Image File Format, abbreviated TIFF or TIF, is an image file format for storing raster graphics images, popular among graphic artists, the publishing industry, and photographers. TIFF is widely supported by scanning, faxing, word processin ...

, RAW * Micrograph parameters: STAR (Bsoft dictionary),

XML Extensible Markup Language (XML) is a markup language and file format for storing, transmitting, and reconstructing arbitrary data. It defines a set of rules for encoding documents in a format that is both human-readable and machine-readable. T ...

(Bsoft schema), EMX (EM exchange format schema) * Sequences: EMBL, Fasta, Genbank, Phylip, PIR, STAR, Text * Molecular modeling: Gromacs, PDB, STAR/mmCIF, Text, WAH * General modeling: Chimera marker model, STAR (Bsoft dictionary), XML (Bsoft schema)

Publications

* Heymann JB (2001) Bsoft: Image and molecular processing in electron microscopy. Journal of Structural Biology 133(2/3), 156 - 169. * Heymann JB and Belnap DM (2007) Bsoft: Image processing and molecular modeling for electron microscopy. Journal of Structural Biology 157(1), 3 - 18. * Heymann JB, Cardone G, Winkler DC and Steven AC (2008) Computational resources for cryo-electron tomography in Bsoft. Journal of Structural Biology 161(3), 232 – 242. * Heymann JB (2018) Guidelines for using Bsoft for high resolution reconstruction and validation of biomolecular structures from electron micrographs. Protein Science 27(1), 159-171. * Heymann JB (2018) Single particle reconstruction and validation using Bsoft for the Map Challenge. Journal of Structural Biology 204(1), 90-95.

External links

Bsoft home page
*

Software Tools For Molecular Microscopy Transmission electron cryomicroscopy (CryoTEM), commonly known as cryo-EM, is a form of cryogenic electron microscopy, more specifically a type of transmission electron microscopy (TEM) where the sample is studied at cryogenic temperatures (genera ...

Image processing software

Technical details

Publications

See also

External links