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How to test evolutionary rates for each species in a gene alignment?
evolutionary rate R
5.2 years ago by DNAngel ▴ 250
0
votes
0
replies
1.0k
views
R package to calculate ancestral state characters using maximum parsimony?
R maximum parsimony ancestral states
5.5 years ago by DNAngel ▴ 250
0
votes
2
replies
6.5k
views
Is there a tool to calculate sequence similarity of sequences in a MSA?
alignment DNA
5.5 years ago by DNAngel ▴ 250
0
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0
replies
1.0k
views
Theory question on dN/dS values for phylogeny
dNdS paml codeml
5.6 years ago by DNAngel ▴ 250
1
vote
7
replies
3.0k
views
Help with understanding PAML M0 output
PAML M0
updated 5.6 years ago by ★ 1.9k • written 5.6 years ago by ▴ 250
5
votes
4
replies
2.8k
views
Does Whole Exome Sequencing Include Mitochondrial Genome??
mitogenome exome whole exome sequencing
updated 5.6 years ago by 22k • written 5.6 years ago by ▴ 250
0
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3
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1.4k
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How to set up a reference file for BWA so that highly variable sites between conserved regions are detected?
bwa samtools
5.7 years ago by DNAngel ▴ 250
0
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4
replies
1.8k
views
How do you run codeml for two genes in one file but with 1 species tree?
PAML codeml
updated 5.7 years ago by ★ 1.4k • written 5.7 years ago by ▴ 250
8
votes
3
replies
5.3k
views
How to distinguish if a gene is a paralogue or an isoform?
paralogue isoform gene
updated 5.7 years ago by ★ 1.9k • written 5.7 years ago by ▴ 250
5
votes
9
replies
2.7k
views
Can BWA restart a calculation after a break?
bwa samtools
updated 5.8 years ago by 15k • written 5.8 years ago by ▴ 250
2
votes
1
reply
957
views
Do the lowercase bases seen in BAM files need to be reverse complemented in consensus?
BAM
updated 5.8 years ago by 104k • written 5.8 years ago by ▴ 250
13
votes
16
replies
7.8k
views
6 follow
Confused about how to generate a consensus sequence after bwa
bwa samtools mpileup
5.9 years ago by DNAngel ▴ 250
7
votes
5
replies
4.1k
views
How to save trimmomatic terminal summary to an output file?
trimmomatic
5.9 years ago by DNAngel ▴ 250
0
votes
1
reply
1.8k
views
How do you make a tree file in R using a fasta MSA?
R
6.0 years ago by DNAngel ▴ 250
0
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2
replies
1.4k
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How to keep a log of columns removed from edited MSA?
MEGA MSA Python
updated 6.7 years ago by 20 • written 6.8 years ago by ▴ 250
1
vote
7
replies
2.4k
views
makeblastdb.exe giving me an unclear error message when creating a database
blast
updated 7.0 years ago by 164k • written 7.0 years ago by ▴ 250
2
votes
1
reply
2.5k
views
How much does cleandata in PAML analysis remove?
PAML codeml cleandata
updated 7.3 years ago by 35k • written 7.3 years ago by ▴ 250
0
votes
11
replies
3.2k
views
Is there a way to do clustalo profile-profile alignment without adding gaps to first profile?
profile-profile alignment clustalo
7.3 years ago by DNAngel ▴ 250
0
votes
0
replies
1.6k
views
How to map exon data to CDS from one reference species?
exon cds exome protein mapping
updated 7.5 years ago by 20 • written 7.6 years ago by ▴ 250
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