accessors | Access the various fields of a GenBank record. |
as.gbLocation | Create a 'gbLocation'. |
biofiles | _biofiles_ is an R package for interfacing with GenBank or... |
dbxref-methods | Access the 'db_xref's of GenBank features |
dot-filter | Filter gbFeatures from a FeatureTable |
dot-select | Select annotations from a FeatureTable |
embl_record | Parser for Embl Records. |
end | Get or set the end position of genomic features |
extract-methods | Method extensions to extraction operator for gbRecord... |
featureTable-methods | Tabulate Genbank features |
fuzzy | Has a feature fuzzy locations? |
gbFeature-class | Class '"gbFeature"' |
gbFeatureTable-class | Class '"gbFeatureTable"' |
gbHeader-class | Generator object for the '"gbHeader"' reference class |
gbk_record | Parser for GenBank/GenPept records. |
gbLocation-class | Class '"gbLocation"' |
gbLocus-class | Generator object for the '"gbLocus"' reference class |
gbRecord | Read a GenBank/GenPept or Embl format file. |
gbRecord-class | Class '"gbRecord"' |
gbRecordList-class | Class '"gbRecordList"' |
gbReference-class | Generator object for the '"gbReference"' reference class |
gbReferenceList-class | Generator object for the '"gbReferenceList"' reference class |
geneID | Return the _gene_ qualifiers from GenBank features. |
genomeRecordFromNCBI | Fetch genomes from NCBI |
getContigSeq | Retrieve the sequence of a contig |
getFeatures-methods | Get the feature table from a GenBank record. |
getHeader-methods | Extract the header from a '"gbRecord"' object. |
getSequence-methods | Get the sequence from a GenBank record. |
has_command | Test if an external executable is available |
hasKey-methods | Has a feature a specific key? |
hasQualif-methods | Has a feature a specific qualifier? |
index-methods | Access the indices of GenBank features |
key-methods | Get/set keys of GenBank features |
length-methods | Get the number of gbFeatures. |
linebreak | Format paragraphs |
location-methods | Access genomic locations of GenBank features |
locusTag | Return the _locus_tag_ qualifiers from GenBank features. |
manip-methods | Return a subset of features or annotations from a GenBank... |
note | Return the _note_ qualifiers from GenBank features. |
pad | Pad a string |
product | Return the _product_ qualifiers from GenBank features. |
proteinID | Return the _protein_id_ qualifiers from GenBank features. |
qualifList-methods | List the names of Genbank qualifiers. |
qualif-methods | Get/set qualifiers of GenBank features |
qualifTable-methods | Tabulate Genbank qualifiers |
ranges | Extract features as '"GRanges"' objects. |
revcomp-methods | Reverse-complement features in a GenBank record |
saveRecord-methods | Save and load 'gbRecord' objects. |
seqinfo-class | Generator object for the '"seqinfo"' reference class |
shift | Shift the location of features in a GenBank record |
span | Get the span of genomic features. |
start | Get or set the start position of genomic features |
strand | Get or set the strand information of genomic features |
summary-methods | Summarise a GenBank record. |
translation | Return the _translation_s from GenBank features. |
uniqueQualifs | Quickly list all qualifier names. |
upstream | Find flanking features. |
view-methods | View all features in a 'gbFeatureTable' |
write.FeatureTable-methods | Write GenBank records or features to file in Feature Table... |
write.GenBank-methods | Write GenBank records or features to file in GenBank format |
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