issues
search
singa-bio
/
singa
:leaves: SiNGA (Simulation of Natural Systems using Graph Automata) is an open-source library containing tools especially for structural bioinformatics and systems biology.
MIT License
8
stars
2
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
exception thrown for 3OIS
#46
cleberecht
closed
7 years ago
2
parse from local pdb
#45
cleberecht
closed
7 years ago
1
modified amino acids are not assigned correctly
#44
cleberecht
closed
7 years ago
1
cache / remember information from cifs
#43
cleberecht
closed
7 years ago
2
parsing of multiple structures
#42
cleberecht
closed
7 years ago
1
bonds are not assigned correctly
#41
cleberecht
closed
6 years ago
1
builder pattern for pdb file parsing
#40
cleberecht
closed
7 years ago
1
LeafIdentifier in multi-model structures is always set to the last model
#39
fkaiserbio
closed
7 years ago
1
ligands are not parsed correctly (atoms missing)
#38
fkaiserbio
closed
7 years ago
1
rename Residue & ResidueFamily to AminoAcid & AminoAcidFamily
#37
fkaiserbio
closed
7 years ago
2
Adapt Fit3D and the data model to be able to locate intermolecular matches
#36
fkaiserbio
closed
7 years ago
1
insertion code breaks parsing of structure
#35
fkaiserbio
closed
7 years ago
1
add representation schemes for Residues
#34
fkaiserbio
closed
7 years ago
1
parsing single chains does not really return a chain
#33
fkaiserbio
closed
7 years ago
2
automatic retrival of bonds for ligands from pdb
#32
cleberecht
closed
7 years ago
2
implement stream of values for matrices
#31
fkaiserbio
closed
7 years ago
1
override equals() for Substructures
#30
fkaiserbio
closed
6 years ago
3
Ions cannot be parsed (element not found)
#29
fkaiserbio
closed
7 years ago
1
introduce superordinate BranchStructrue for structural motifs
#28
fkaiserbio
closed
7 years ago
1
implement parallel distance matrix calculation
#27
fkaiserbio
closed
5 years ago
2
superordinate abstraction of Residues, Nucleotides, Ligands, etc. necessary
#26
fkaiserbio
closed
7 years ago
2
smiles parser - nested branches are not parsed correctly
#25
cleberecht
closed
7 years ago
1
smiles parser - isotopes and ions are ignored
#24
cleberecht
closed
7 years ago
2
smiles parser - '.' is ignored and a single bond is added instead
#23
cleberecht
closed
7 years ago
1
connecting backbone peptides throws NoSuchElementException when backbone atoms are missing
#22
fkaiserbio
closed
7 years ago
1
getCopy() of chains produces NPE
#21
fkaiserbio
closed
7 years ago
1
implement atom filters
#20
fkaiserbio
closed
7 years ago
1
implement SubStructure superimposition
#19
fkaiserbio
closed
7 years ago
1
add Singular Value Decomposition
#18
fkaiserbio
closed
7 years ago
1
implement vector superimposition
#17
fkaiserbio
closed
7 years ago
1
adapt current species overview for complex chemical entities
#16
cleberecht
closed
7 years ago
1
implement complexes of different chemical components
#15
cleberecht
closed
7 years ago
1
consider subcellular location for placement of enzymes
#14
cleberecht
closed
6 years ago
1
consider parsing cofactors from uniprot
#13
cleberecht
closed
5 years ago
1
consider composing enzymes from subunits.
#12
cleberecht
closed
6 years ago
1
generalized tuples
#11
fkaiserbio
closed
7 years ago
1
import for enzyme/protein data from uniprot
#10
cleberecht
closed
7 years ago
3
merge possible duplicates of chemical entities
#9
cleberecht
closed
6 years ago
1
provide relaxation algorithm for optimal distribution of nodes
#8
cleberecht
closed
6 years ago
1
improve voronoi diagram creation
#7
cleberecht
closed
7 years ago
1
add gui to manipulate and design graphs
#6
cleberecht
closed
7 years ago
1
add whole simulation setups from sbml files
#5
cleberecht
closed
7 years ago
1
add gui to import and design reactions
#4
cleberecht
closed
7 years ago
1
add possibility to import chemical entities referenced in sbml files
#3
cleberecht
closed
7 years ago
3
add possibility to import reactions from sbml files
#2
cleberecht
closed
7 years ago
2
add new possibilities to create graphs in the wizard
#1
cleberecht
closed
7 years ago
1
Previous