Showing : msa • reset
0
votes
2
replies
337
views
Error in msaFun Cannot open input file. No alignment!
msa
written 10 weeks ago by ▴ 30
0
votes
1
reply
421
views
Cant post a bug report
msa
updated 4 months ago by ▴ 50 • written 9 months ago by • 0
0
votes
0
replies
312
views
msa package Error in .local(x, ...) : consensus matrix 'x' is not in proper format
msa
10 months ago Yang • 0
0
votes
2
replies
622
views
msa Installation failed - please help
Install msa
12 months ago Ido • 0
1
vote
7
replies
3.1k
views
MSA package fails to be installed - installation of package ‘msa’ had non-zero exit status
msa MultipleSequenceAlignment
updated 14 months ago by • 0 • written 3.2 years ago by • 0
0
votes
0
replies
357
views
msa module crash
msa
16 months ago systems • 0
0
votes
0
replies
498
views
adding peptides to a multiple sequence alignment
msa IRanges Biostrings
16 months ago Mario Dejung • 0
0
votes
7
replies
3.0k
views
msa: object 'msaClustalW' of mode 'function' was not found
msa
updated 17 months ago by ▴ 290 • written 3.8 years ago by • 0
0
votes
1
reply
761
views
Error installing package msa on macOS Monterey 12.6 arm64
msa arm64
19 months ago lisa.a.ouellette • 0
0
votes
0
replies
739
views
Edit alignment in msa
alig msa Alignment
20 months ago Luis • 0
0
votes
1
reply
1.1k
views
Difficulty with msaConvert function in R package
ape msa
updated 2.1 years ago by ▴ 290 • written 2.5 years ago by • 0
1
vote
1
reply
1.3k
views
Msa package clustal-omega
msa
updated 2.5 years ago by ▴ 180 • written 2.5 years ago by • 0
0
votes
0
replies
587
views
Can I quantify the number of mismatches post alignment?
msa
2.6 years ago Field -Ye • 0
8
votes
8
replies
2.7k
views
msa compilation failure - multiple definition of `GC_jmp_buf' in gc-7.2
software error msa
updated 2.6 years ago by ▴ 290 • written 3.9 years ago by ▴ 40
0
votes
1
reply
1.1k
views
msaprettyprint
msa prettyprint
updated 3.0 years ago by ▴ 290 • written 3.0 years ago by • 0
1
vote
3
replies
2.6k
views
msaprettyprint error in R
msa
updated 3.5 years ago by ▴ 290 • written 3.8 years ago by • 0
0
votes
0
replies
519
views
[Function Request]converts a AA-based fasta alignment (that includes aa fasta sequences of different strains) into a vcf file
msa
3.6 years ago yeli7068 • 0
0
votes
3
replies
1.7k
views
DECIPHER save alignement in outputs
msa decipher output prettyPrint
updated 3.7 years ago by ▴ 290 • written 3.7 years ago by • 0
0
votes
0
replies
785
views
msa: cannot load library silently
msa
3.7 years ago richel • 0
0
votes
3
replies
1.4k
views
Align a list of DNA sequence, extract only positions with SNPs for conpact view?
msa Biostrings
updated 4.1 years ago by ▴ 290 • written 4.1 years ago by ▴ 80
1
vote
1
reply
1.2k
views
Error using r msa::msaClustalW in parallel
software error msa
updated 4.3 years ago by ▴ 290 • written 4.3 years ago by ▴ 10
0
votes
1
reply
2.5k
views
Seeking help deploying Shiny application to RStudio Connect with Bioconductor package
Rstudio Connect msa bios2mds BiocManager Bioconductor
5.0 years ago morlenrp • 0
0
votes
1
reply
1.1k
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 5.1 years ago by ▴ 20 • written 5.1 years ago by • 0
1
vote
2
replies
1.1k
views
What is the '?' in the result of R package 'msa' function 'msa'?
MSA R Multiple sequence alignment consensus sequence
updated 5.1 years ago by ▴ 20 • written 5.1 years ago by • 0
0
votes
9
replies
1.9k
views
visualizing alignment without realignment
msa alignment visualization
updated 5.3 years ago by 25k • written 5.3 years ago by • 0
1
vote
2
replies
1.3k
views
Package for custom visualization of multiple sequence alignment
MSA visualization
updated 5.6 years ago by ▴ 20 • written 5.6 years ago by • 0
0
votes
4
replies
1.3k
views
Error: could not find function "msaConvert"
msa
updated 5.9 years ago by ▴ 290 • written 5.9 years ago by • 0
0
votes
1
reply
899
views
Defining populations in a msaClustalOmega alignment
msa
6.0 years ago cav3gh • 0
2
votes
2
replies
3.5k
views
How to get msa output in fasta format
msa msaprettyprint()
updated 6.1 years ago by ▴ 290 • written 6.1 years ago by • 0
2
votes
2
replies
1.2k
views
seqfault wiht msa
msa segfault
6.1 years ago jmh5ad ▴ 40
0
votes
1
reply
1.5k
views
Status 1 error when using msaPrettyPrint() to make pdfs with MsaAAMultipleAlignment
msaprettyprint() latex pdf msa
updated 6.4 years ago by ▴ 290 • written 6.4 years ago by • 0
0
votes
1
reply
1.4k
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 6.4 years ago by ▴ 290 • written 6.4 years ago by • 0
2
votes
11
replies
5.2k
views
How do I extract the complete MsaAAMultipleAlignment object to a file
msaprettyprint() msa multiplealignment export
updated 6.4 years ago by ▴ 290 • written 6.4 years ago by ★ 1.5k
2
votes
4
replies
2.1k
views
running msa (msa) aborts R session
msa alignment r software error
written 6.5 years ago by • 0
3
votes
2
replies
1.9k
views
Installation of MSA package fails
MSA package installation software error compilation error
updated 6.5 years ago by ▴ 290 • written 6.5 years ago by ▴ 10
2
votes
2
replies
2.3k
views
msa: How to obtain a subset of an alignment
msa Biostrings MultipleAlignment
updated 6.7 years ago by ▴ 290 • written 6.7 years ago by ▴ 10
4
votes
5
replies
1.8k
views
Can't install msa on FreeBSD
software error FreeBSD msa
6.8 years ago spcohen2 ▴ 20
1
vote
2
replies
1.3k
views
untranslate AAstringset {Biostrings} or MsaAAMultipleAlignment {msa}
biostrings msa
6.8 years ago multipleseqs • 0
8
votes
14
replies
11k
views
Using msa msaPrettyPrint(): saving multiple alignement fasta file
msa msaprettyprint() fasta
updated 7.0 years ago by • 0 • written 7.4 years ago by ▴ 50
2
votes
5
replies
1.9k
views
Multiple Sequence Alignment using DNA sequence
msa decipher
7.0 years ago bbista91 ▴ 10
2
votes
2
replies
2.0k
views
Error with MSA package - could not find symbol "recursive"
msa
updated 7.2 years ago by 25k • written 7.2 years ago by ▴ 10
2
votes
1
reply
1.4k
views
Outputting a multiple alignment to file error: could not find function write.XStringSet
msa
updated 7.3 years ago by ▴ 290 • written 7.3 years ago by ▴ 10
1
vote
2
replies
1.3k
views
msaPrettyPrint cannot handle long sequences?
msa msaprettyprint() multiple sequence alignment
7.3 years ago map2085 ▴ 40
9
votes
14
replies
3.4k
views
msa package installation problem
msa
updated 7.3 years ago by ▴ 10 • written 7.4 years ago by ▴ 120
2
votes
9
replies
3.3k
views
msa alignement: sorted sequences by sequence name
msa alignement output sorted
7.3 years ago Olorin ▴ 50
1
vote
1
reply
4.7k
views
Using msa msaPrettyPrint(): issues with latex
msa latex msaPrettyPrint()
7.4 years ago Olorin ▴ 50
0
votes
0
replies
1.3k
views
Using readAAMultipleAlignment to parse CMFinder Stockholm format alignments
biostrings stockholm msa cmfinder
7.4 years ago Keith Hughitt ▴ 180
0
votes
1
reply
1.0k
views
How to draw phylogeny tree for long genomes? ('msa' taking much time)
msa phylogenetic
updated 7.5 years ago by ▴ 290 • written 7.5 years ago by ▴ 50
0
votes
1
reply
1.8k
views
Error: could not find function "msaConvert"
msa software error
updated 7.6 years ago by ▴ 290 • written 7.6 years ago by • 0
0
votes
3
replies
1.6k
views
installation failed when trying msa
msa
updated 7.7 years ago by ▴ 290 • written 7.7 years ago by • 0
50 results • Page 1 of 1
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Comment: How to compare subset of samples from VCF files by Gordon Smyth 50k
Welcome to Bioconductor support. Did you know that you can delete your old postings if they haven't received an answer yet? Instead of ap…
Comment: How to compare subset of samples from VCF files by Marco • 0
Here's the vcf file as code block ``` ##fileformat=VCFv4.2 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth"> ##FOR…
Comment: Gviz and custom database by James W. MacDonald 66k
The vignette for `Gviz` says you can use a `DNAStringSet`, generated using `Biostrings`. Have you tried that?
Comment: Gviz and custom database by luigi.faino • 0
Dear, this is not what I need. I need to transform a fasta sequence in a genome track usable in Gviz. L
Answer: Gviz and custom database by James W. MacDonald 66k
https://bioconductor.org/packages/release/bioc/vignettes/txdbmaker/inst/doc/txdbmaker.html
Votes
Answer: makeExampleDESeqDataSet using pilot data
Answer: Checking/updating package versions
Answer: Why is longestConsecutive() depreceated in version 2.72 (BioC version 3.19)?
convert data frame of Entrez IDs to Gene Symbols
Answer: LRT, pairwise comparisons and p-value adjustment
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