Showing : msa • reset
0
votes
1
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378
views
Difficulty with msaConvert function in R package
ape msa
updated 4 months ago by ▴ 290 • written 8 months ago by • 0
1
vote
1
reply
399
views
Msa package clustal-omega
msa
updated 8 months ago by ▴ 180 • written 8 months ago by • 0
0
votes
0
replies
144
views
Can I quantify the number of mismatches post alignment?
msa
9 months ago Field -Ye • 0
1
vote
6
replies
1.2k
views
MSA package fails to be installed - installation of package ‘msa’ had non-zero exit status
msa MultipleSequenceAlignment
updated 8 weeks ago by • 0 • written 17 months ago by • 0
8
votes
8
replies
1.5k
views
msa compilation failure - multiple definition of `GC_jmp_buf' in gc-7.2
software error msa
updated 10 months ago by ▴ 290 • written 2.1 years ago by ▴ 40
0
votes
1
reply
419
views
msaprettyprint
msa prettyprint
updated 14 months ago by ▴ 290 • written 15 months ago by • 0
1
vote
3
replies
1.1k
views
msaprettyprint error in R
msa
updated 20 months ago by ▴ 290 • written 24 months ago by • 0
0
votes
0
replies
187
views
[Function Request]converts a AA-based fasta alignment (that includes aa fasta sequences of different strains) into a vcf file
msa
21 months ago yeli7068 • 0
0
votes
3
replies
677
views
DECIPHER save alignement in outputs
msa decipher output prettyPrint
updated 23 months ago by ▴ 290 • written 23 months ago by • 0
0
votes
0
replies
338
views
msa: cannot load library silently
msa
23 months ago richel • 0
0
votes
6
replies
1.1k
views
msa: object 'msaClustalW' of mode 'function' was not found
msa
updated 23 months ago by ▴ 290 • written 23 months ago by • 0
0
votes
3
replies
511
views
Align a list of DNA sequence, extract only positions with SNPs for conpact view?
msa Biostrings
updated 2.3 years ago by ▴ 290 • written 2.3 years ago by ▴ 70
1
vote
1
reply
372
views
Error using r msa::msaClustalW in parallel
software error msa
updated 2.5 years ago by ▴ 290 • written 2.5 years ago by ▴ 10
0
votes
1
reply
1.5k
views
Seeking help deploying Shiny application to RStudio Connect with Bioconductor package
Rstudio Connect msa bios2mds BiocManager Bioconductor
3.2 years ago morlenrp • 0
0
votes
1
reply
477
views
Can any of the existing `MSA` packages be used/adapted to visualize a pre-aligned fasta or tsv file (e.g., `kalign` output)?
msa phylogeny
updated 3.3 years ago by ▴ 20 • written 3.3 years ago by • 0
1
vote
2
replies
452
views
What is the '?' in the result of R package 'msa' function 'msa'?
MSA R Multiple sequence alignment consensus sequence
updated 3.3 years ago by ▴ 20 • written 3.3 years ago by • 0
0
votes
9
replies
989
views
visualizing alignment without realignment
msa alignment visualization
updated 3.5 years ago by 25k • written 3.5 years ago by • 0
1
vote
2
replies
668
views
Package for custom visualization of multiple sequence alignment
MSA visualization
updated 3.8 years ago by ▴ 20 • written 3.8 years ago by • 0
0
votes
4
replies
666
views
Error: could not find function "msaConvert"
msa
updated 4.1 years ago by ▴ 290 • written 4.1 years ago by • 0
0
votes
1
reply
493
views
Defining populations in a msaClustalOmega alignment
msa
4.2 years ago cav3gh • 0
2
votes
2
replies
2.1k
views
How to get msa output in fasta format
msa msaprettyprint()
updated 4.3 years ago by ▴ 290 • written 4.3 years ago by • 0
2
votes
2
replies
602
views
seqfault wiht msa
msa segfault
4.3 years ago jmh5ad ▴ 40
0
votes
1
reply
857
views
Status 1 error when using msaPrettyPrint() to make pdfs with MsaAAMultipleAlignment
msaprettyprint() latex pdf msa
updated 4.6 years ago by ▴ 290 • written 4.6 years ago by • 0
0
votes
1
reply
818
views
Error in .Primitive("c")(<S4 object of class "IRanges">) : could not find symbol "recursive" in environment of the generic function running msa
msa iranges
updated 4.6 years ago by ▴ 290 • written 4.6 years ago by • 0
2
votes
11
replies
2.9k
views
How do I extract the complete MsaAAMultipleAlignment object to a file
msaprettyprint() msa multiplealignment export
updated 4.6 years ago by ▴ 290 • written 4.6 years ago by ★ 1.5k
2
votes
3
replies
1.1k
views
running msa (msa) aborts R session
msa alignment r software error
updated 4.7 years ago by ▴ 290 • written 4.7 years ago by • 0
3
votes
2
replies
1.3k
views
Installation of MSA package fails
MSA package installation software error compilation error
updated 4.7 years ago by ▴ 290 • written 4.7 years ago by ▴ 10
2
votes
2
replies
1.3k
views
msa: How to obtain a subset of an alignment
msa Biostrings MultipleAlignment
updated 4.9 years ago by ▴ 290 • written 4.9 years ago by ▴ 10
4
votes
5
replies
1.2k
views
Can't install msa on FreeBSD
software error FreeBSD msa
5.0 years ago spcohen2 ▴ 20
1
vote
2
replies
778
views
untranslate AAstringset {Biostrings} or MsaAAMultipleAlignment {msa}
biostrings msa
5.0 years ago multipleseqs • 0
8
votes
14
replies
8.2k
views
Using msa msaPrettyPrint(): saving multiple alignement fasta file
msa msaprettyprint() fasta
updated 5.2 years ago by • 0 • written 5.6 years ago by ▴ 50
2
votes
5
replies
1.2k
views
Multiple Sequence Alignment using DNA sequence
msa decipher
5.2 years ago bbista91 ▴ 10
2
votes
2
replies
1.6k
views
Error with MSA package - could not find symbol "recursive"
msa
updated 5.4 years ago by 25k • written 5.4 years ago by ▴ 10
2
votes
1
reply
938
views
Outputting a multiple alignment to file error: could not find function write.XStringSet
msa
updated 5.5 years ago by ▴ 290 • written 5.5 years ago by ▴ 10
1
vote
2
replies
837
views
msaPrettyPrint cannot handle long sequences?
msa msaprettyprint() multiple sequence alignment
5.5 years ago map2085 ▴ 40
9
votes
14
replies
2.2k
views
msa package installation problem
msa
updated 5.5 years ago by ▴ 10 • written 5.6 years ago by ▴ 120
2
votes
9
replies
2.1k
views
msa alignement: sorted sequences by sequence name
msa alignement output sorted
5.6 years ago Olorin ▴ 50
1
vote
1
reply
3.5k
views
Using msa msaPrettyPrint(): issues with latex
msa latex msaPrettyPrint()
5.6 years ago Olorin ▴ 50
0
votes
0
replies
862
views
Using readAAMultipleAlignment to parse CMFinder Stockholm format alignments
biostrings stockholm msa cmfinder
5.6 years ago Keith Hughitt ▴ 170
0
votes
1
reply
726
views
How to draw phylogeny tree for long genomes? ('msa' taking much time)
msa phylogenetic
updated 5.7 years ago by ▴ 290 • written 5.7 years ago by ▴ 50
0
votes
1
reply
1.3k
views
Error: could not find function "msaConvert"
msa software error
updated 5.8 years ago by ▴ 290 • written 5.8 years ago by • 0
0
votes
3
replies
954
views
installation failed when trying msa
msa
updated 5.9 years ago by ▴ 290 • written 5.9 years ago by • 0
0
votes
1
reply
911
views
msa memory limitation
msa
updated 6.2 years ago by ▴ 290 • written 6.2 years ago by ▴ 40
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Comment: An ESR essay about software design, and how it applies to Bioconductor by Gary • 0
It's relevant for me, thank you for the information!
Comment: An ESR essay about software design, and how it applies to Bioconductor by Gary • 0
Thank you for sharing!
Comment: conditional command within GRanges by Basti ▴ 390
I can't reproduce your issue because you did not provided an example of your dataset (example with `dput(head(data1))`, but in the first ca…
Comment: Error in Create switchAnalyzeRlist by k.vitting.seerup ▴ 120
That sounds like you have the wrong version of the annotation compared to which version you used for the quantification?
Comment: Error in Create switchAnalyzeRlist by bpshtiwan ▴ 10
Great... now it is same. but still I have problem with four possibilities during using IsoformSwitchAnalyzeR. Knidly, any idea where is the…
Votes
Answer: WHat is the difference between DEG and TopVarGenes in DESEq2?
Answer: WHat is the difference between DEG and TopVarGenes in DESEq2?
A: EGSEA error during report generation: "only 0's may be mixed with negative subsc
Answer: mapToAlignments_issue
Analysis of peaks generated from Homer using Diffbind
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