Table of available file formats¶

Note

If you would like your data format to appear in the table below, please contact us via GitHub.

The following table contains the various different file formats currently implemented in ConKit.

Type	Format	Keyword	Parser
Contact Prediction	Bbcontacts	`bbcontacts`^*	`BbcontactsParser`
	BCLContacts	`bclcontacts`^*	`BCLContactParser`
	Casp RR	`casp`, `casprr`	`CaspParser`
	CCMpred	`ccmpred`	`CCMpredParser`
	COMSAT	`comsat`	`ComsatParser`
	EPCMap	`epcmap`	`EPCMapParser`
	EVfold (EVcouplings)	`evfold`	`EVfoldParser`
	Flib	`flib`	`PconsParser`
	FreeContact	`freecontact`	`FreeContactParser`
	GREMLIN	`gremlin`	`GremlinParser`
	map_align	`mapalign`	`MapAlignParser`
	MemBrain	`membrain`	`MemBrainParser`
	mmCIF	`mmcif`^*	`MmCifParser`
	Ncont	`ncont`^*	`NcontParser`
	NeBcon	`nebcon`	`PsicovParser`
	Pcons[C\|C2\|C3]	`pconsc`, `pconsc2`, `pconsc3`	`PconsParser`
	Protein DataBank (PDB)	`pdb`^*	`PdbParser`
	plmDCA	`plmdca`	`PlmDCAParser`
	[Meta]PSICOV	`psicov`, `metapsicov`	`PsicovParser`
	Rosetta	`rosetta`⁺	`RosettaParser`
	SAINT2	`saint2`	`PconsParser`
Sequence Alignment	A2M	`a2m`	`A2mParser`
	A3M	`a3m`, `a3m-inserts`^a	`A3mParser`
	Clustal	`clustal`	`ClustalParser`
	FASTA	`fasta`	`FastaParser`
	Jones	`jones` ^b	`A2mParser`
	Stockholm	`stockholm`	`StockholmParser`
^* These formats do not have a `write()` function. ⁺ These formats do not have a `read()` function. ^a The `a3m-inserts` keyword stores the alignment including insert states. ^b The `jones` format corresponds to the HH-suite A2M format.