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seqmagick (version 0.1.2)

Sequence Manipulation Utilities

Description

Supports reading and writing sequences for different formats (currently interleaved and sequential formats for 'FASTA' and 'PHYLIP'), file conversion, and manipulation (e.g. filter sequences that contain specify pattern, export consensus sequence from an alignment).

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Install

install.packages('seqmagick')

Monthly Downloads

753

Version

0.1.2

License

Artistic-2.0

Issues

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Maintainer

Guangchuang Yu

Last Published

December 18th, 2019

Functions in seqmagick (0.1.2)

fas2phy

fas2phy
seqlen

seqlen
renameTXT

renameTXT
phy_write

phy_write
replaceInside

replaceInside
fa_rename

fa_rename
fa_write

fa_write
fa_to_interleaved

fa_to_interleaved
fa_filter

fa_filter
fa_read

fa_read
get_id

get_id
phy2fas

phy2fas
phy_read

phy_read
consensus

consensus
bam2DNAStringSet

bam2DNAStringSet
download_genbank

download_genbank
bs_aln

bs_aln
bs_hamming

bs_hamming
bs_rename

bs_rename
bam2DNAStringSet2

bam2DNAStringSet2
fa_combine

fa_combine
bs_filter

bs_filter