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MSA
•
reset
0
votes
2
replies
206
views
Error in msaFun Cannot open input file. No alignment!
msa
written 5 weeks ago by
Kamil Slowikowski
▴ 30
0
votes
1
reply
374
views
Cant post a bug report
msa
updated 3 months ago by
alexandre.blais
▴ 50 • written 8 months ago by
Torbjørn
• 0
0
votes
0
replies
289
views
msa package Error in .local(x, ...) : consensus matrix 'x' is not in proper format
msa
9 months ago
Yang
• 0
0
votes
2
replies
575
views
msa Installation failed - please help
Install
msa
11 months ago
Ido
• 0
0
votes
0
replies
333
views
msa module crash
msa
15 months ago
systems
• 0
0
votes
0
replies
466
views
adding peptides to a multiple sequence alignment
msa
IRanges
Biostrings
15 months ago
Mario Dejung
• 0
0
votes
1
reply
733
views
Error installing package msa on macOS Monterey 12.6 arm64
msa
arm64
18 months ago
lisa.a.ouellette
• 0
0
votes
0
replies
685
views
Edit alignment in msa
alig
msa
Alignment
18 months ago
Luis
• 0
1
vote
1
reply
1.3k
views
Msa package clustal-omega
msa
updated 2.4 years ago by
Gerhard Thallinger
▴ 180 • written 2.4 years ago by
Radwa
• 0
0
votes
1
reply
1.1k
views
Difficulty with msaConvert function in R package
ape
msa
updated 2.0 years ago by
UBod
▴ 290 • written 2.4 years ago by
João Tadeu
• 0
0
votes
0
replies
564
views
Can I quantify the number of mismatches post alignment?
msa
2.4 years ago
Field -Ye
• 0
0
votes
1
reply
1.1k
views
msaprettyprint
msa
prettyprint
updated 2.9 years ago by
UBod
▴ 290 • written 2.9 years ago by
SB775
• 0
1
vote
7
replies
3.0k
views
MSA package fails to be installed - installation of package ‘msa’ had non-zero exit status
msa
MultipleSequenceAlignment
updated 13 months ago by
stitam
• 0 • written 3.1 years ago by
thanos_docp
• 0
0
votes
0
replies
498
views
[Function Request]converts a AA-based fasta alignment (that includes aa fasta sequences of different strains) into a vcf file
msa
3.5 years ago
yeli7068
• 0
0
votes
3
replies
1.7k
views
DECIPHER save alignement in outputs
msa
decipher
output
prettyPrint
updated 3.6 years ago by
UBod
▴ 290 • written 3.6 years ago by
matamunee
• 0
0
votes
0
replies
765
views
msa: cannot load library silently
msa
3.6 years ago
richel
• 0
0
votes
7
replies
2.9k
views
msa: object 'msaClustalW' of mode 'function' was not found
msa
updated 16 months ago by
UBod
▴ 290 • written 3.7 years ago by
richel
• 0
1
vote
3
replies
2.5k
views
msaprettyprint error in R
msa
updated 3.4 years ago by
UBod
▴ 290 • written 3.7 years ago by
liripo
• 0
8
votes
8
replies
2.6k
views
msa compilation failure - multiple definition of `GC_jmp_buf' in gc-7.2
software error
msa
updated 2.5 years ago by
UBod
▴ 290 • written 3.8 years ago by
Freddie
▴ 40
0
votes
3
replies
1.3k
views
Align a list of DNA sequence, extract only positions with SNPs for conpact view?
msa
Biostrings
updated 4.0 years ago by
UBod
▴ 290 • written 4.0 years ago by
Vang Le
▴ 80
1
vote
1
reply
1.2k
views
Error using r msa::msaClustalW in parallel
software error
msa
updated 4.2 years ago by
UBod
▴ 290 • written 4.2 years ago by
vladimirbcs
▴ 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
4.9 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 5.0 years ago by
ulrich.bodenhofer
▴ 20 • written 5.0 years ago by
jananiravi
• 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 5.0 years ago by
ulrich.bodenhofer
▴ 20 • written 5.0 years ago by
Yuchen Chang
• 0
0
votes
9
replies
1.9k
views
visualizing alignment without realignment
msa
alignment
visualization
updated 5.2 years ago by
Martin Morgan
25k • written 5.2 years ago by
tim.ivanov.92
• 0
1
vote
2
replies
1.2k
views
Package for custom visualization of multiple sequence alignment
MSA
visualization
updated 5.5 years ago by
ulrich.bodenhofer
▴ 20 • written 5.5 years ago by
tim.ivanov.92
• 0
0
votes
4
replies
1.2k
views
Error: could not find function "msaConvert"
msa
updated 5.8 years ago by
UBod
▴ 290 • written 5.8 years ago by
singh24s
• 0
0
votes
1
reply
871
views
Defining populations in a msaClustalOmega alignment
msa
5.9 years ago
cav3gh
• 0
2
votes
2
replies
3.4k
views
How to get msa output in fasta format
msa
msaprettyprint()
updated 6.0 years ago by
UBod
▴ 290 • written 6.0 years ago by
cav3gh
• 0
2
votes
2
replies
1.1k
views
seqfault wiht msa
msa
segfault
6.0 years ago
jmh5ad
▴ 40
0
votes
1
reply
1.4k
views
Status 1 error when using msaPrettyPrint() to make pdfs with MsaAAMultipleAlignment
msaprettyprint()
latex
pdf
msa
updated 6.3 years ago by
UBod
▴ 290 • written 6.3 years ago by
Cecil
• 0
0
votes
1
reply
1.3k
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 6.3 years ago by
UBod
▴ 290 • written 6.3 years ago by
mtorresp1975
• 0
2
votes
11
replies
5.1k
views
How do I extract the complete MsaAAMultipleAlignment object to a file
msaprettyprint()
msa
multiplealignment
export
updated 6.3 years ago by
UBod
▴ 290 • written 6.3 years ago by
Assa Yeroslaviz
★ 1.5k
3
votes
2
replies
1.9k
views
Installation of MSA package fails
MSA
package installation
software error
compilation error
updated 6.4 years ago by
UBod
▴ 290 • written 6.4 years ago by
sean.pikosz
▴ 10
2
votes
4
replies
2.1k
views
running msa (msa) aborts R session
msa
alignment
r
software error
written 6.4 years ago by
ans74
• 0
2
votes
2
replies
2.2k
views
msa: How to obtain a subset of an alignment
msa
Biostrings
MultipleAlignment
updated 6.6 years ago by
UBod
▴ 290 • written 6.6 years ago by
Christof Winter
▴ 10
4
votes
5
replies
1.8k
views
Can't install msa on FreeBSD
software error
FreeBSD
msa
6.7 years ago
spcohen2
▴ 20
1
vote
2
replies
1.2k
views
untranslate AAstringset {Biostrings} or MsaAAMultipleAlignment {msa}
biostrings
msa
6.7 years ago
multipleseqs
• 0
2
votes
5
replies
1.9k
views
Multiple Sequence Alignment using DNA sequence
msa
decipher
6.9 years ago
bbista91
▴ 10
2
votes
2
replies
2.0k
views
Error with MSA package - could not find symbol "recursive"
msa
updated 7.1 years ago by
Martin Morgan
25k • written 7.1 years ago by
cmdcolin
▴ 10
2
votes
1
reply
1.4k
views
Outputting a multiple alignment to file error: could not find function write.XStringSet
msa
updated 7.2 years ago by
UBod
▴ 290 • written 7.2 years ago by
cmdcolin
▴ 10
1
vote
2
replies
1.3k
views
msaPrettyPrint cannot handle long sequences?
msa
msaprettyprint()
multiple sequence alignment
7.2 years ago
map2085
▴ 40
2
votes
9
replies
3.2k
views
msa alignement: sorted sequences by sequence name
msa
alignement
output
sorted
7.2 years ago
Olorin
▴ 50
8
votes
14
replies
11k
views
Using msa msaPrettyPrint(): saving multiple alignement fasta file
msa
msaprettyprint()
fasta
updated 6.9 years ago by
tongtong.wang1210
• 0 • written 7.3 years ago by
Olorin
▴ 50
1
vote
1
reply
4.7k
views
Using msa msaPrettyPrint(): issues with latex
msa
latex
msaPrettyPrint()
7.3 years ago
Olorin
▴ 50
0
votes
0
replies
1.2k
views
Using readAAMultipleAlignment to parse CMFinder Stockholm format alignments
biostrings
stockholm
msa
cmfinder
7.3 years ago
Keith Hughitt
▴ 180
9
votes
14
replies
3.3k
views
msa package installation problem
msa
updated 7.2 years ago by
Nam
▴ 10 • written 7.3 years ago by
branislav misovic
▴ 120
0
votes
1
reply
1.0k
views
How to draw phylogeny tree for long genomes? ('msa' taking much time)
msa
phylogenetic
updated 7.4 years ago by
UBod
▴ 290 • written 7.4 years ago by
vinod.acear
▴ 50
0
votes
1
reply
1.7k
views
Error: could not find function "msaConvert"
msa
software error
updated 7.5 years ago by
UBod
▴ 290 • written 7.5 years ago by
weiguo0113
• 0
0
votes
3
replies
1.5k
views
installation failed when trying msa
msa
updated 7.6 years ago by
UBod
▴ 290 • written 7.6 years ago by
akp
• 0
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Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge
by
shuwangxinze1996
• 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough?
Comment: DESeq2 output used for PCA plot on R studio
by
Kevin Blighe
★ 3.9k
This comment helps.
Comment: DESeq2 output used for PCA plot on R studio
by
Kevin Blighe
★ 3.9k
I am not sure how your comment helps here?
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
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Answer: How to retrieve gene ontology GO class from gene list?
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