| Simple (Interactive) |
| Description |
The Interactive Simple output format breaks the terms out into their component
sections (Suggested MeSH Heading, Suggested CheckTags, and Suggested
SubHeadings).
|
| Example |
Suggested MeSH Headings:
-- Macaca
Suggested CheckTags:
-- Animal
Suggested SubHeadings:
-- No SubHeadings Recommended
|
| Simple (Batch) |
| Description |
The Batch Simple output format is similar to the Interactive Simple format
detailed above, except here, we add in the PMID and a field separator.
|
| Example |
99999999|Suggested MeSH Headings:
99999999| -- Macaca
99999999|
99999999|Suggested CheckTags:
99999999| -- Animal
99999999|
99999999|Suggested SubHeadings:
99999999| -- No SubHeadings Recommended
|
| Detailed |
| Description |
Detailed display showing all relevant information about all
of the topN recommendations.
Format: PMID|Term|CUI|Score|Type|Misc|Location|Path(s)
PMID - PubMed assigned unique identifier. If freetext, this is "0".
Term - MeSH Term. If the term has an asterisk ("*") at the beginning, it
denotes that the term was identified as coming from the Title section
of a document. This is an optional output item and requires the
"-starMHTI" option being specified.
CUI - Concept Unique Identifier for the MeSH Term.
Score - MTI score for this term.
Type - Type of the term:
MH - MeSH Heading
HM - Heading Mapped to
ET - Entry Term
NM - Supplemental Concept
SH - MeSH SubHeading
CT - MeSH CheckTag
Misc - If ET, this explains the replacement. If not, blank.
Location - If term comes from MMI, we have location information showing
where the term came from within the text. "TI" - Title,
"AB" - Abstract or "TI;AB" - comes from both Title and Abstract.
Path(s) - One or more designators showing which of the pathways recommended
the term.
MM - MetaMap's MMI
RC - PubMed Related Citations
TG - John Wilbur's Trigram Method
|
| Example |
99999999|*Macaques|C0024398|36858|ET|Replaces "Macaca" - Alternative(s) (Macaque)|TI|MM;RC
99999999|Simian T-lymphotropic virus 1|C0038344|1758|MH|||RC
|
| Full Listing with Detailed |
| Description |
The Full Listing format is the similar to the Detailed format
outlined above.
The differences are that the Full Listing shows the entire list and includes
a number showing the list position for each recommendation.
Format: PMID|List position|Term|CUI|Score|Type|Misc|Location|Path(s)
The fields are defined as above in the "Detailed" output format. The only
addition is as follows:
List position - One up number of the term's location in our hierarchical list.
|
| Example |
99999999|1|Macaca|C0024398|36858|MH||TI|MM;RC
99999999|2|Hominidae|C0019874|9762|MH||TI;AB|MM
99999999|3|Spumavirus|C0080180|7927|MH||AB|MM;RC
99999999|10|Primates|C0033147|1828|MH||AB|MM;RC
99999999|11|Simian T-lymphotropic virus 1|C0038344|1758|MH|||RC
99999999|12|Monkey Diseases|C0026431|1026|MH|||RC
99999999|13|transmission|C0040722|1011|SH||TI|MM
|
| Just The Facts |
| Description |
The fields are the same as "Detailed" above except here we limit to just the first four fields.
Format: PMID|Term|CUI|Score
|
| Example |
99999999|*Macaques|C0024398|36858
|
| DCMS List |
| Description |
The DCMS List output format is a single line showing the PMID followed
by zero or more recommended MeSH Terms and their associated data
type.
Format: PMID|Recommended MeSH Term:Data Type|
|
| Example |
99999999|Macaca:MH|Hominidae:MH|Spumavirus:MH|Cercopithecus aethiops:MH|
Papio:MH|Retroviridae:MH|Pan troglodytes:MH|Retroviridae Infections:MH|
Primates:MH|Simian T-lymphotropic virus 1:MH|Monkey Diseases:MH|
Macaca mulatta:MH|Animals:MH|Macaca nemestrina:MH|Gorilla gorilla:MH|
Molecular Sequence Data:MH|Cercopithecus:MH|Deltaretrovirus Infections:MH|
Phylogeny:MH|Base Sequence:MH|Primate Diseases:MH|DNA Primers:MH|
SIV:MH|Antigens, Viral:MH|Polymerase Chain Reaction:MH|
Human:CT|Animal:CT|transmission:SH|
|
| Show "NO_TERMS" List |
| Description |
This is the same as the DCMS List above except if we have zero
recommendations for a given PMID, we will print "NO_TERMS".
Format: PMID|Recommended MeSH Term:Data Type|
|
| Example |
99999999|NO_TERMS
|