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5.3k
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Comment: Comment: Metabolomics log-transform or standardize for WGCNA
14 months ago by DNAlias ▴ 40
2
votes
1
reply
1.1k
views
Using OrthoMCL on command line
orthomcl
updated 3.8 years ago by 15k • written 3.8 years ago by ▴ 40
0
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0
replies
603
views
PAML/CODEML: which sites are selected in site model?
paml codeml
4.0 years ago by DNAlias ▴ 40
0
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0
replies
658
views
PAML (CODEML) with 0 branch lengths
PAML codeml
4.0 years ago by DNAlias ▴ 40
1
vote
0
replies
882
views
Codon alignment with degenerate nucleotides?
paml codeml codon alignment
4.0 years ago by DNAlias ▴ 40
1
vote
4
replies
1.7k
views
Finding transcriptome coverage of genome
mapping transcriptome trinity RNAseq
updated 4.0 years ago by ▴ 710 • written 4.0 years ago by ▴ 40
0
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0
replies
696
views
Augustus training with partial transcriptome?
augustus maker maker2 annotation
4.1 years ago by DNAlias ▴ 40
2
votes
1
reply
1.6k
views
What are the best intron splice finder tools?
intron gene prediction eukaryotes annotation
4.5 years ago by DNAlias ▴ 40
0
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0
replies
779
views
Comment: A: Translation for genes with introns
4.5 years ago by DNAlias ▴ 40
0
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1
reply
779
views
Translation for genes with introns
translation eukaryote
4.5 years ago by DNAlias ▴ 40
0
votes
1
reply
917
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
4.6 years ago by DNAlias ▴ 40
0
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1
reply
950
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What does it mean when a gene has an exon count of 0 on the ncbi database?
ncbi introns
4.6 years ago by DNAlias ▴ 40
0
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1
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1.0k
views
Comment: C: What is the best way to get a set of all of the genes for a genome via entrez?
4.6 years ago by DNAlias ▴ 40
3
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3
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1.0k
views
What is the best way to get a set of all of the genes for a genome via entrez?
entrez
updated 4.6 years ago by 150k • written 4.6 years ago by ▴ 40
5
votes
1
reply
1.6k
views
RAxML: comparing ML values
raxml
updated 4.7 years ago by 20 • written 5.4 years ago by ▴ 40
0
votes
2
replies
729
views
Retrieving assembly scaffold length information without downloading the sequence?
Assembly
4.9 years ago by DNAlias ▴ 40
0
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0
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955
views
ClustalW output MSA in R (without consensus)
msa R
4.9 years ago by DNAlias ▴ 40
4
votes
7
replies
4.9k
views
Clarification for using PSI-BLAST to generate a PSSM (am I doing it right?)
psiblast
updated 4.9 years ago by ★ 29k • written 4.9 years ago by ▴ 40
0
votes
0
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4.9k
views
Comment: C: Clarification for using PSI-BLAST to generate a PSSM (am I doing it right?)
4.9 years ago by DNAlias ▴ 40
0
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0
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1.1k
views
Comment: C: Is there a way to use API to convert taxa-ID to common/scientific name via NCBI?
4.9 years ago by DNAlias ▴ 40
1
vote
4
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1.1k
views
Is there a way to use API to convert taxa-ID to common/scientific name via NCBI?
ncbi api
4.9 years ago by DNAlias ▴ 40
0
votes
2
replies
768
views
Does the MAKER pipeline require transcriptional data?
maker annotation
updated 5.0 years ago by 15k • written 5.0 years ago by ▴ 40
0
votes
0
replies
777
views
OrthoDB API: accessing hierarchical taxonomy data using R
orthodb
5.0 years ago by DNAlias ▴ 40
0
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1
reply
1.1k
views
Comment: C: What programs can be used to predict all of the coding sequences in a eukaryotic
5.0 years ago by DNAlias ▴ 40
2
votes
1
reply
597
views
What phylogenetic groupings are used for busco4?
phylogenetics
updated 5.0 years ago by ★ 29k • written 5.0 years ago by ▴ 40
3
votes
6
replies
1.1k
views
What programs can be used to predict all of the coding sequences in a eukaryotic genome?
genome
5.0 years ago by DNAlias ▴ 40
0
votes
0
replies
3.6k
views
Comment: C: How to generate a multiple sequence alignment that retains the annotations from
5.2 years ago by DNAlias ▴ 40
0
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0
replies
3.6k
views
Comment: C: How to generate a multiple sequence alignment that retains the annotations from
5.2 years ago by DNAlias ▴ 40
0
votes
3
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3.6k
views
Comment: C: How to generate a multiple sequence alignment that retains the annotations from
5.2 years ago by DNAlias ▴ 40
2
votes
5
replies
3.6k
views
How to generate a multiple sequence alignment that retains the annotations from the original sequences?
sequence alignment
updated 5.2 years ago by ★ 29k • written 5.2 years ago by ▴ 40
0
votes
0
replies
815
views
calculating unassembled insert size mean/SD/min/max from PE library
genome Assembly
5.3 years ago by DNAlias ▴ 40
0
votes
2
replies
936
views
Non-de bruijn graph assemblers
Assembly
5.3 years ago by DNAlias ▴ 40
1
vote
1
reply
997
views
How are haplotypes/heterozygosity resolved in sequence assembly?
assembly
updated 5.3 years ago by ★ 2.6k • written 5.3 years ago by ▴ 40
3
votes
2
replies
829
views
What makes certain genomes harder to sequence? Are there any trends among taxonomic groups?
sequencing next-gen
updated 5.3 years ago by ★ 29k • written 5.3 years ago by ▴ 40
0
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1
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4.9k
views
Comment: C: How to download genome via Entrez
5.5 years ago by DNAlias ▴ 40
3
votes
4
replies
4.9k
views
How to download genome via Entrez
entrez fetch ncbi
updated 5.5 years ago by ▴ 650 • written 5.5 years ago by ▴ 40
0
votes
2
replies
888
views
Generating a list of all GI numbers for a genome
NCBI
updated 5.6 years ago by ▴ 10 • written 5.6 years ago by ▴ 40
2
votes
1
reply
2.1k
views
When to use masking in BLAST?
BLAST masking
5.6 years ago by DNAlias ▴ 40
2
votes
2
replies
3.3k
views
MrBayes batch scripting
mrbayes bash
updated 5.6 years ago by ★ 29k • written 5.6 years ago by ▴ 40
1
vote
0
replies
954
views
MrBayes: placing a new branch on an existing tree
mrbayes phylogenetics
5.6 years ago by DNAlias ▴ 40
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