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ropensci
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phylotaR
An automated pipeline for retrieving orthologous DNA sequences from GenBank in R
https://docs.ropensci.org/phylotaR
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Identical clusters making it into alignments
#71
avaghezel
opened
4 months ago
1
Include treeman in the package
#70
ShixiangWang
closed
1 year ago
0
drop taxa functionality
#69
heqixin
opened
1 year ago
1
Fetch and error seem to be stuck
#68
jamie-thompson
closed
1 year ago
2
Generating taxonomic dictionary error
#67
jamie-thompson
closed
1 year ago
1
test failure
#66
ShixiangWang
closed
1 year ago
1
Could get something new from https://github.com/pachterlab/gget
#65
ShixiangWang
opened
1 year ago
0
Remove treeman as a dependency?
#64
ShixiangWang
closed
1 year ago
2
Add email
#63
maelle
closed
1 year ago
2
No need for restez_connect()
#62
joelnitta
closed
1 year ago
1
Fix pkgdown configuration for reference
#61
maelle
closed
1 year ago
3
CRAN archive of package outsider
#60
ShixiangWang
closed
1 year ago
0
Styling and updating maintainer information
#59
ShixiangWang
closed
2 years ago
0
Next release
#58
ShixiangWang
closed
1 year ago
6
New Maintainer Wanted
#57
maelle
closed
2 years ago
5
Description - not enough information
#56
Bunholi
opened
3 years ago
0
Clusters with different parent number but the same MAD, seed, length, n_taxa, n_seqs
#55
Bunholi
opened
3 years ago
0
Can not install the package in windows
#54
FishyguyNeel
closed
2 years ago
2
Multiple markers/loci per cluster issue
#53
bpjburger
opened
3 years ago
4
No periods or tildes in file paths
#52
rvosa
opened
3 years ago
3
Use phylotaR for retrieving orthologous protein sequences
#51
janstrauss1
opened
3 years ago
1
Possibility to supply NCBI API key when running pipeline to access NCBI data faster?
#50
janstrauss1
opened
3 years ago
1
problem with the restez/phylota integration
#49
DomBennett
closed
4 years ago
0
failing to run drop_by_rank()
#48
sly1983
closed
1 year ago
15
you probably don't want to link to the http://phylota.net/ website anymore
#47
sckott
closed
2 years ago
2
makeblastdb failing to run
#46
mrubenss
closed
1 year ago
3
Dependency 'treeman' has been archived:
#45
jeroen
closed
2 years ago
3
PhylotaR Cluster error: blastn failed to run
#44
maariapaul
closed
1 year ago
8
Allow users to modify the NCBI search term in their parameters
#43
DomBennett
closed
2 years ago
0
Amount of data accessible with this pkg?
#42
sckott
closed
4 years ago
3
Error in gzfile
#41
oscarIM
closed
1 year ago
4
Unable to find correct versions of NCBI BLAST+ tools
#40
EricaBarroso
closed
2 years ago
3
PhylotaR setup issue
#39
pittaro90
closed
1 year ago
15
An Error in PhylotaR
#38
ZQ1126
closed
5 years ago
3
Fasta error
#37
DomBennett
closed
2 years ago
0
Restyle
#36
DomBennett
closed
6 years ago
0
Error: blastn failed to run. Check BLAST log files
#35
CesarDamian
closed
5 years ago
2
Search for a single cluster
#34
DomBennett
closed
1 year ago
1
Infrasturcture and support for blastn alternatives
#33
DomBennett
closed
1 year ago
1
makeblastdb failed to run
#32
jgomezd
closed
5 years ago
3
Several species
#31
jgomezd
closed
2 years ago
9
makeblastdb error
#30
DomBennett
closed
6 years ago
6
Use goodpractice::gp()
#29
DomBennett
closed
6 years ago
0
Drop parallel
#28
DomBennett
closed
6 years ago
0
pkgdown
#27
DomBennett
closed
6 years ago
0
Test demo pipelines on Windows
#26
DomBennett
closed
6 years ago
0
Increase test coverage
#25
DomBennett
closed
6 years ago
0
Contributing needed
#24
DomBennett
closed
6 years ago
0
Investigate incorporating more packages
#23
DomBennett
closed
6 years ago
0
Cat and print consistency for classes
#22
DomBennett
closed
6 years ago
1
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