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4.8k
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Comment: Comment: Metabolomics log-transform or standardize for WGCNA
8 months ago by DNAlias ▴ 40
2
votes
1
reply
1.0k
views
Using OrthoMCL on command line
orthomcl
updated 3.4 years ago by 15k • written 3.4 years ago by ▴ 40
0
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0
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533
views
PAML/CODEML: which sites are selected in site model?
paml codeml
3.6 years ago by DNAlias ▴ 40
0
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0
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579
views
PAML (CODEML) with 0 branch lengths
PAML codeml
3.6 years ago by DNAlias ▴ 40
1
vote
0
replies
786
views
Codon alignment with degenerate nucleotides?
paml codeml codon alignment
3.6 years ago by DNAlias ▴ 40
1
vote
4
replies
1.5k
views
Finding transcriptome coverage of genome
mapping transcriptome trinity RNAseq
updated 3.6 years ago by ▴ 670 • written 3.6 years ago by ▴ 40
0
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0
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629
views
Augustus training with partial transcriptome?
augustus maker maker2 annotation
3.7 years ago by DNAlias ▴ 40
2
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1
reply
1.4k
views
What are the best intron splice finder tools?
intron gene prediction eukaryotes annotation
4.1 years ago by DNAlias ▴ 40
0
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0
replies
698
views
Comment: A: Translation for genes with introns
4.1 years ago by DNAlias ▴ 40
0
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1
reply
698
views
Translation for genes with introns
translation eukaryote
4.1 years ago by DNAlias ▴ 40
0
votes
1
reply
817
views
Is there a way to limit the number of returned efetch (text, tabular) terms with just the entrez api (not entrez direct)
entrez eutils ncbi
4.2 years ago by DNAlias ▴ 40
0
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1
reply
892
views
What does it mean when a gene has an exon count of 0 on the ncbi database?
ncbi introns
4.2 years ago by DNAlias ▴ 40
0
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1
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932
views
Comment: C: What is the best way to get a set of all of the genes for a genome via entrez?
4.2 years ago by DNAlias ▴ 40
3
votes
3
replies
932
views
What is the best way to get a set of all of the genes for a genome via entrez?
entrez
updated 4.2 years ago by 147k • written 4.2 years ago by ▴ 40
5
votes
1
reply
1.4k
views
RAxML: comparing ML values
raxml
updated 4.3 years ago by 20 • written 5.0 years ago by ▴ 40
0
votes
2
replies
676
views
Retrieving assembly scaffold length information without downloading the sequence?
Assembly
4.5 years ago by DNAlias ▴ 40
0
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0
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909
views
ClustalW output MSA in R (without consensus)
msa R
4.5 years ago by DNAlias ▴ 40
4
votes
7
replies
4.3k
views
Clarification for using PSI-BLAST to generate a PSSM (am I doing it right?)
psiblast
updated 4.5 years ago by ★ 28k • written 4.5 years ago by ▴ 40
0
votes
0
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4.3k
views
Comment: C: Clarification for using PSI-BLAST to generate a PSSM (am I doing it right?)
4.5 years ago by DNAlias ▴ 40
0
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0
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969
views
Comment: C: Is there a way to use API to convert taxa-ID to common/scientific name via NCBI?
4.5 years ago by DNAlias ▴ 40
1
vote
4
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969
views
Is there a way to use API to convert taxa-ID to common/scientific name via NCBI?
ncbi api
4.5 years ago by DNAlias ▴ 40
0
votes
2
replies
678
views
Does the MAKER pipeline require transcriptional data?
maker annotation
updated 4.5 years ago by 15k • written 4.5 years ago by ▴ 40
0
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0
replies
681
views
OrthoDB API: accessing hierarchical taxonomy data using R
orthodb
4.6 years ago by DNAlias ▴ 40
0
votes
1
reply
945
views
Comment: C: What programs can be used to predict all of the coding sequences in a eukaryotic
4.6 years ago by DNAlias ▴ 40
2
votes
1
reply
541
views
What phylogenetic groupings are used for busco4?
phylogenetics
updated 4.6 years ago by ★ 28k • written 4.6 years ago by ▴ 40
3
votes
6
replies
945
views
What programs can be used to predict all of the coding sequences in a eukaryotic genome?
genome
4.6 years ago by DNAlias ▴ 40
0
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0
replies
3.3k
views
Comment: C: How to generate a multiple sequence alignment that retains the annotations from
4.8 years ago by DNAlias ▴ 40
0
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0
replies
3.3k
views
Comment: C: How to generate a multiple sequence alignment that retains the annotations from
4.8 years ago by DNAlias ▴ 40
0
votes
3
replies
3.3k
views
Comment: C: How to generate a multiple sequence alignment that retains the annotations from
4.8 years ago by DNAlias ▴ 40
2
votes
5
replies
3.3k
views
How to generate a multiple sequence alignment that retains the annotations from the original sequences?
sequence alignment
updated 4.8 years ago by ★ 28k • written 4.8 years ago by ▴ 40
0
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0
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773
views
calculating unassembled insert size mean/SD/min/max from PE library
genome Assembly
4.8 years ago by DNAlias ▴ 40
0
votes
2
replies
857
views
Non-de bruijn graph assemblers
Assembly
4.9 years ago by DNAlias ▴ 40
1
vote
1
reply
919
views
How are haplotypes/heterozygosity resolved in sequence assembly?
assembly
updated 4.9 years ago by ★ 2.6k • written 4.9 years ago by ▴ 40
3
votes
2
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750
views
What makes certain genomes harder to sequence? Are there any trends among taxonomic groups?
sequencing next-gen
updated 4.9 years ago by ★ 28k • written 4.9 years ago by ▴ 40
0
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1
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4.6k
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Comment: C: How to download genome via Entrez
5.1 years ago by DNAlias ▴ 40
3
votes
4
replies
4.6k
views
How to download genome via Entrez
entrez fetch ncbi
updated 5.1 years ago by ▴ 630 • written 5.1 years ago by ▴ 40
0
votes
2
replies
831
views
Generating a list of all GI numbers for a genome
NCBI
updated 5.1 years ago by ▴ 10 • written 5.1 years ago by ▴ 40
2
votes
1
reply
2.1k
views
When to use masking in BLAST?
BLAST masking
5.1 years ago by DNAlias ▴ 40
2
votes
2
replies
3.1k
views
MrBayes batch scripting
mrbayes bash
updated 5.1 years ago by ★ 28k • written 5.1 years ago by ▴ 40
1
vote
0
replies
875
views
MrBayes: placing a new branch on an existing tree
mrbayes phylogenetics
5.2 years ago by DNAlias ▴ 40
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