er_scripts creating /home/seguidcalculator/.virtualenvs/MyVirtualenv/bin/postdeactivate er_scripts creating /home/seguidcalculator/.virtualenvs/MyVirtualenv/bin/predeactivate Seeder FromAppData(download=False, pip=bundle, setuptools=bundle, wheel=bundle, via=copy, app_data_dir=/home/seguidcaĪdded seed packages: pip=21.3, setuptools=58.2.0, wheel=0.37.0Īctivators BashActivator,CShellActivator,FishActivator,PowerShellActivator,PythonActivator,XonshActivator How to install on pythonanywhere: 16:33 ~ $ mkvirtualenv -python=python3.9 MyVirtualenvĬreated virtual environment CPython3.9.5.final.0-64 in 13108msĬreator CPython3Posix(dest=/home/seguidcalculator/.virtualenvs/MyVirtualenv, clear=False, no_vcs_ignore=False, global There is also an online version built with flask and hosted on pythonanywhere.Ĭlick here or on the image above to take you to the website. Seguid_calculator is written in python 3 with wxPython 4 which is the only dependence. Regardless of the form they are presented. This can be useful to identify double stranded DNA sequences, That if a sequence and its reverse compliment have the same lSEGUIDs. The lSEGUID is the uSEGUID of the lexicographically smallest of the sense or anti-sense strands of a blunt double stranded DNA sequence. Analysis of both sequences in seguid_calculator proves that both sequences are in fact representations of the same sequence by their identical cSEGUIDs: Genbank The sequence of the plasmid pFA6a-GFPS65T-kanMX6 is available from GenbankĪnd from other sources such as the Forsburg lab, sequence here, a copy of which was saved here.īoth sequences are the same size and claim to describe the same vector. The cSEGUID checksum can be useful to quickly determine if two sequences refer to the same plasmid vector. The cSEGUID provide a unique and stable identifier for circular sequences, such as plasmids. Of a sequence or its reverse complement (whichever is lexicographically smaller). The cSEGUID is defined as the SEGUID of the lexicographically minimal string rotation Of a circular sequence, the use of the uSEGUID checksum directly is impractical as there would be many checksums for the cSEGUIDĬircular uSEGUID or cSEGUID is the uSEGUID checksum for circular (DNA) sequences. This makes it possible to use the checksum as a part of a URL. Of SHA-1 where forward slash and plus ("/", "+") characters of standard base64 are There are several implementations of SEGUID calculation available, such as the one in Biopython. SEGUID was suggested by Babnigg and GiomettiĪs a way to provide stable identifiers of protein sequences in databases for cross referencing. Primary biological sequence in uppercase. The SEGUID checksum is defined as the base64 encoded Installation from pypi: pip install seguid_calculator There is also an online version (see links at the end of this page. These apps and packages are built automatically using Github actions. Pick the correct file for your system: OS The quickest way to use seguid_calculator is by downloading one of the apps, they requre no installation at all. Seguid_calculator is a GUI for calculating the uSEGUID, lSEGUID and cSEGUID checksums for a biological sequence (DNA, RNA or protein).
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