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SBRG
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ssbio
A Python framework for structural systems biology
http://ssbio.readthedocs.io/en/latest/
MIT License
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Returns empty df for AlphaFoldDB files
#58
knowmili
opened
2 months ago
0
ImportError: cannot import name 'one_to_three' from 'Bio.PDB.Polypeptide'
#57
miri-2000
opened
7 months ago
0
ImportError: cannot import name 'Mapping' from 'collections'
#56
wook2014
opened
11 months ago
0
MSMS installation on MacOS
#55
gcroci2
opened
1 year ago
0
Difficulty installing SSBIO package due to dependency conflicts
#54
MaryAnnBlaetke
opened
1 year ago
0
tmhmm installtion and running
#53
kishor2019
opened
3 years ago
0
SIFTS map uniprot resnum to PDB function fix
#52
JoshuaMeyers
opened
3 years ago
0
mapping pdb resnum to uniprot resnum
#51
JoshuaMeyers
opened
4 years ago
0
Import Error - Bio.Alphabet has been removed from Biopython
#50
a-r-j
opened
4 years ago
2
Use of .ix indexing is deprecated in pandas & no pandas version specified in requirements.
#49
a-r-j
opened
4 years ago
0
characterize_residue_mutation will only return properties defined in EXTENDED_AA_PROPERTY_DICT_ONE
#48
pvphaneuf
opened
4 years ago
0
Fail to read P00533
#47
bkellman
opened
6 years ago
0
tmscore issue
#46
bkellman
opened
6 years ago
1
Issues running the tutorial
#45
bkellman
opened
6 years ago
1
Comprehensive calculation of amino acid composition
#44
nmih
opened
6 years ago
0
Add runtime estimates for third party programs
#43
nmih
opened
6 years ago
0
Some more complex updates, bug fixes
#42
nmih
closed
6 years ago
0
Raise error when PDB file cannot be downloaded
#41
nmih
closed
6 years ago
0
Update Protein class to match other changes
#40
nmih
closed
6 years ago
0
Additional parallelization tests and some crucial bug fixes
#39
nmih
closed
6 years ago
0
Remove webcolors from requirements
#38
nmih
closed
6 years ago
0
Added example function to parallelize KEGG mapping.
#37
nmih
closed
6 years ago
0
Update requirements.txt
#36
nmih
closed
6 years ago
0
Update requirements.txt
#35
nmih
closed
6 years ago
0
Fix notebook errors
#34
nmih
closed
6 years ago
0
Fix notebook errors
#33
nmih
closed
6 years ago
0
Fix notebook errors
#32
nmih
closed
6 years ago
0
Fix notebook errors
#31
nmih
closed
6 years ago
0
Fix notebook errors
#30
nmih
closed
6 years ago
0
Fix notebook errors
#29
nmih
closed
6 years ago
0
Add nbsphinx_allow_errors
#28
nmih
closed
6 years ago
0
Develop
#27
nmih
closed
6 years ago
0
Architectural change todo -- PDBProp objects with the same ID for a GEM-PRO should point to the same object rather than being created under different proteins
#26
nmih
opened
6 years ago
1
Aquaria -- perhaps ssbio can have links to aquaria info pages
#25
nmih
opened
6 years ago
0
Pyspark and parquet for sequences analysis to parallelize computations
#24
nmih
opened
6 years ago
0
Virtual Jupyter notebooks (Everware, Binder) to have external software preinstalled for workflows would be much better for sustainability
#23
nmih
closed
6 years ago
1
Revamp logging to disable at higher levels
#22
nmih
opened
6 years ago
0
Tab completion issues on Jupyter notebook for a GEMPRO object
#21
nmih
closed
6 years ago
3
Importing ssbio on python2.7 cobra environment
#20
nmih
opened
7 years ago
1
COBRApy's newest release (0.6.1) moves json attributes into a new module
#19
nmih
closed
7 years ago
2
json-tricks - saving a string with two forward slashes
#18
nmih
opened
7 years ago
0
Problematic PDB files: list of IDs
#17
nmih
opened
7 years ago
1
lxml etree doesn't work in Python 3.6?
#16
nmih
opened
7 years ago
0
Cleaning mmtf files and saving as pdbs
#15
nmih
closed
7 years ago
0
Issue saving PDB 5LZD
#14
nmih
opened
7 years ago
0
pdb_file_type does not propagate when loading a GEM
#13
nmih
closed
7 years ago
0
Intuitive coloring of protein structures
#12
nmih
opened
7 years ago
1
Sequence to structure pairwise alignment parameter tuning
#11
nmih
opened
7 years ago
3
Option to run QC/QA for all structures
#10
nmih
opened
7 years ago
1
No module named json_r
#9
erolkavvas
closed
7 years ago
2
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