Abstracts-class |
Class '"Abstracts"' Abstract Class |
additional_info |
To extract sentences with nultiple keywords from Abstracts |
alias_fn |
To extract sentences containing Alias of the Human Genes from Pubmed abstracts. |
altnamesfun |
To Get Alternative names of Genes |
BWI |
To obtain the Buzz Word Index of terms from the Abstracts. |
cleanabs |
To clean the result of searchabsL |
cleanabs-method |
Methods for Function 'cleanabs' |
cleanabs-methods |
Methods for Function 'cleanabs' |
cluster_words |
To Find the highest frequency of words within clusters |
combineabs |
To combine the abstracts |
combineabs-method |
'Abstracts' Method to Combine Abstracts |
combineabs-methods |
'Abstracts' Method to Combine Abstracts |
common_words_new |
R Data containing words which frequently in text |
contextSearch |
For Context Search |
contextSearch-method |
Method for Context Search |
contextSearch-methods |
Method for Context Search |
cos_sim_calc |
To calculate the cosine similarity between terms. |
cos_sim_calc_boot |
Cosine Similarity Calculation by Boot Strapping |
co_occurrence_advance |
Extracts multiple sentence with co-occurrence of two sets of terms) |
co_occurrence_fn |
Extracts sentences with co-occurrence of two sets of terms |
currentabs_fn |
To Retrive the Abstracts for year. |
Find_conclusion |
To find the conclusion from the abstract(s). |
find_intro_conc_html |
To find the introduction and conclusion from the abstracts. |
genes_BWI |
Function to obtain the Buzz Word Index of Genes from the abstracts. |
GeneToEntrez |
Data containing Entrez Ids |
Genewise |
To Search the number of abstracts for Genes |
Genewise-method |
method to find the abstracts for the given gene. |
Genewise-methods |
method to find the abstracts for the given gene. |
gene_atomization |
To Extract Genes from the Abstracts |
getabs |
To get Abstracts for a given term. |
getabs-method |
'getabs' To Get abstracts for a term |
getabs-methods |
'getabs' To Get abstracts for a term |
getabsT |
To get Abstracts for a given term. |
getabsT-method |
To Get Abstracts |
getabsT-methods |
To Get Abstracts |
get_DOIs |
function for extracting Digital Object Identifier (DOIs) of papers |
get_gene_sentences |
To extract the sentences for genes from the corpus. |
get_MedlinePlus |
To Get MedLinePlus Summary |
get_NMids |
To extract NM ids from NCBI. |
get_original_term |
To get the original terms from the corpus. deprecated |
get_original_term2 |
To get the original terms from the corpus. |
get_PMCIDS |
To extract the PMC Ids of the abstracts. |
get_PMCtable |
To fetch the given PMC article tables. Deprecated |
get_Sequences |
To extract the Gene sequence from the NCBI. |
Give_Sentences |
To extract sentences from the Abstracts |
Give_Sentences_PMC |
To fetch the sentence from the PMC full text article |
head_abbrev |
To extract the abbreviated term. |
HGNC-class |
HGNC Class for package. |
HGNC2UniprotID |
R Data containing HGNC2UniprotID data mapping. |
HGNCdata |
R Data containing HGNC data. |
input_for_find_intro_conc_html |
fetch the abstracts using E-utilities. |
local_uniprotfun |
To Get Information from Uniprot. |
names_fn |
To extract the sentences in asbtracts containing gene names from HGNC. |
new_xmlreadabs |
To read the abstracts from the PubMed saved in XML format. |
official_fn |
To extract the sentences containing official gene symbol from abstracts. |
pmids_to_abstracts |
To Find and match the PMIDs to the abstracts. |
previousabs_fn |
To Retrieve the Abstracts from the large corpus for given years. |
prevsymbol_fn |
To extract the sentences containing Previous symbols of HGNC genes. |
printabs |
To prind the total number of abstracts in an S4 object of class Abstracts , its start and end |
pubtator_function |
function for text annotation using PubTator |
pubtator_function_JSON |
function for text annotation using PubTator |
pubtator_result_list_to_table |
Function to Convert Pubtator result from list into Table |
readabs |
To read Abstracts |
readabsnew |
To read Abstracts |
ready |
To Initiate the Classes. |
removeabs |
To remove abstracts for the query term. |
removeabs-method |
'removeabs' To remove abstracts of a term from the data. |
removeabs-methods |
'removeabs' To remove abstracts of a term from the data. |
searchabsL |
To Search the abstracts of term(s) in a combination mode. |
searchabsL-method |
Searching Abstracts |
searchabsL-methods |
Searching Abstracts |
searchabsT |
To Search Abstracts |
searchabsT-method |
'searchabsT' Searching abstracts |
searchabsT-methods |
'searchabsT' Searching abstracts |
sendabs |
To send abstracts |
sendabs-method |
To send the Data into a File |
sendabs-methods |
To send the Data into a File |
SentenceToken |
To Tokenize the sentences |
space_quasher |
Removes extra spaces between words. |
subabs |
To find sub-abstracts |
subabs-method |
Getting subabstracts |
subabs-methods |
Getting subabstracts |
subsetabs |
To make subsets of large corpus. |
subsetabs-method |
To make subset of Abstracts. |
subsetabs-methods |
To make subset of Abstracts. |
tdm_for_lsa |
create Term Document Matrix for lsa analysis |
uniprotfun |
To get information about gene from the UniProt.Deprecated. |
whichcluster |
To fetch the cluster for words |
wordscluster |
To cluster the words |
wordsclusterview |
To view the words in cluster |
word_associations |
Extracts the words associated (to the left and to the right) with a given word |
word_atomizations |
Atomization of words |
xmlgene_atomizations |
Gene atomization of xml abstracts.Deprecated. |
xmlgene_atomizations_new |
Gene atomization of xml abstracts. |
xmlreadabs |
To read the abstracts from the PubMed saved in XML format. |
xmlword_atomizations |
Word atomizations of abstracts from xml format. |
Yearwise |
To Search abstracts Year wise |
Yearwise-method |
'Yearwise' Year wise extraction of Abstracts |
Yearwise-methods |
'Yearwise' Year wise extraction of Abstracts |