VascoElbrecht PrimerMiner issues

VascoElbrecht / PrimerMiner

R mased batch sequence downloader, with primer development and in silico evaluation capabilities

33 stars 11 forks source link

issues

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Error in list[[k]][start:end, 2:5] : subscript out of bounds

#44 z-pyyyy opened 3 weeks ago
0
Error in rawToChar(res$content) : long vectors not supported yet: raw.c:68

#43 YechengWu1123 opened 7 months ago
0
Error in read.fasta(readin[k], as.string = T) : no line starting with a > character found

#42 YechengWu1123 opened 8 months ago
2
PrimerMiner

#41 Saleh-Aljaafari opened 2 years ago
1
not available for this version of R

#40 babinecha opened 2 years ago
6
plot_alignment step restrictions

#39 ucbtmae opened 3 years ago
1
Can't make plots from lower case fasta files

#38 VascoElbrecht opened 3 years ago
0
Design Primers

#37 marcomeola closed 3 years ago
1
update error matching

#36 VascoElbrecht opened 3 years ago
0
Any option to get the species in each cluster?

#35 hernanmd closed 4 years ago
2
Some errors when trying to batch download with 12S and 16S markers

#34 ucbtmae opened 5 years ago
2
Error installing JAMP locally

#33 LarrainK opened 5 years ago
1
NCBI download does currently not work

#32 VascoElbrecht closed 6 years ago
2
check how gaps are handled with ribosomal alignments

#31 VascoElbrecht opened 6 years ago
0
Add maximum sequence number to download!

#30 VascoElbrecht opened 6 years ago
0
0.3 bases

#29 VascoElbrecht opened 6 years ago
0
include product annotation in mitogenome extractions!

#28 VascoElbrecht closed 6 years ago
1
Include scoring table into primer miner it self!

#27 VascoElbrecht closed 7 years ago
1
Install issue

#26 Sebastian-Mynott closed 7 years ago
5
If no sequences are obtained, a ReadLines error occurs

#25 VascoElbrecht closed 6 years ago
1
add function to selectively trimm alignments

#24 VascoElbrecht closed 7 years ago
1
auto delete folders when downloading failed because of server error

#23 VascoElbrecht opened 8 years ago
1
Compare each sequence against a mitochondrial reference before clustering and verify that primers are trimmed with BOLD api

#22 VascoElbrecht opened 8 years ago
0
add an option to include custom data into the clustering process

#21 VascoElbrecht opened 8 years ago
1
Check version in config file against installed PrimerMiner file

#20 VascoElbrecht opened 8 years ago
0
Add dependencies to package so they are automatically installed

#19 VascoElbrecht opened 8 years ago
1
Use "stop(), warning() or message()" instead of "print()"

#18 VascoElbrecht closed 8 years ago
1
BOLD database - support plant / fungi markers

#17 VascoElbrecht opened 8 years ago
0
primer_evaluation

#16 VascoElbrecht closed 6 years ago
1
automatcally cluster mitogenomes as well, to provide a backbone to map agains

#15 VascoElbrecht opened 8 years ago
0
hotfix

#14 VascoElbrecht closed 8 years ago
0
batch download - unknown error

#13 VascoElbrecht opened 8 years ago
4
Make empty taxonomy file when generating the batch file

#12 VascoElbrecht closed 8 years ago
1
add option for custom folder names (taxonomy independent)

#11 VascoElbrecht closed 8 years ago
0
Batch download will fail if no sub categories are defined

#10 VascoElbrecht closed 8 years ago
1
Write PrimerMiner version in config file

#9 VascoElbrecht closed 8 years ago
1
Prevent Vsearch from writing lower characters

#8 VascoElbrecht opened 8 years ago
0
3

#7 VascoElbrecht closed 8 years ago
0
v3

#6 VascoElbrecht closed 8 years ago
0
v0.3

#5 VascoElbrecht closed 8 years ago
0
speed up writing OTU consensus sequences in the batch_download comand

#4 VascoElbrecht opened 8 years ago
1
plot_alignments crashes when only plotting one fasta file

#3 VascoElbrecht opened 8 years ago
1
use --msaout to write majority consensus OTU sequences

#2 VascoElbrecht closed 8 years ago
1
download_stats pruoduces an error when files in the same folder are downloaded several times.

#1 VascoElbrecht opened 8 years ago
0