nuget
cog2003-2014.csv CSV table row for COG, Contains list of orthology domains. Comma-delimited,
COGTable
01 Syntax
SMRUCC.genomics.Assembly.NCBI.COG.COGs.COGTable
02 Methods
03 Properties
| Name | Overloads | Summary |
|---|---|---|
| DomainID | 1 | <domain-id> In this version the fields <domain-id> and <protein-id> are identical And both normally refer to GenBank GIs. |
| GenomeName | 1 | <genome-name |
| ProteinID | 1 | <protein-id>: GI |
| ProteinLength | 1 | <protein-length |
| Start | 1 | <domain-start |
| Ends | 1 | <domain-End |
| COGId | 1 | <COG-id |
| Membership | 1 | <membership-Class> The <membership-class> field indicates the nature of the match between the sequence And the COG consensus + 0 - the domain matches the COG consensus; + 1… |
04 Members
LoadCsv(
String)- Example:
333894695,Alteromonas_SN2_uid67349,333894695,427,1,427,COG0001,0,
Parameters
| Name | Type | Description |
|---|---|---|
path | String | - |
GI2COGs(
IEnumerable(Of COGTable))一个蛋白可能会因为比对上多个结构域而出现多个COG编号的情况
Parameters
| Name | Type | Description |
|---|---|---|
cogTable | IEnumerable(Of COGTable) | - |
Returns
gi, (genome_name, cogs())
DomainID
<domain-id>
In this version the fields <domain-id> and <protein-id> are identical And both normally refer to GenBank GIs. Thus neither <domain-id> nor <protein-id> are necessarily unique in this file (this happens when a protein consists Of more than one orthology domains, e.g. 48478501).
GenomeName
<genome-name>
ProteinID
<protein-id>: GI
ProteinLength
<protein-length>
Start
<domain-start>
Ends
<domain-End>
COGId
<COG-id>
Membership
<membership-Class>
The <membership-class> field indicates the nature of the match between the sequence And the COG consensus
0- the domain matches the COG consensus;1- the domain Is significantly longer than the COG consensus;2- the domain Is significantly shorter than the COG consensus;3- partial match between the domain And the COG consensus.