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155

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Unable to perform tbl2asn for submission of transcriptome to Genbank

ncbi annotation tbl2asn submission transcriptome written 3 months ago by arsilan324 • 40

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279

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Best method to submit an annotated prokaryotic genome in NCBI

genome annotation submission ncbi written 5 months ago by Vijay Lakhujani • 1.9k • updated 5 months ago by Juke-34 • 1.1k

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643

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Tool: GFF3 to EMBL converter

tool gff3 annotation embl conversion submission written 7 months ago by Juke-34 • 1.1k

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394

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How to submit bacterial genomes to the database?

genome bacteria submission written 9 months ago by olp123 • 0

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460

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What does ENA's "Data class" mean?

archive sequence submission ena written 18 months ago by Dan • 470

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662

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Commandline alternatives for generating EMBL flat files from NEXUS alignments

python embl sequence nexus submission written 2.2 years ago by Michael Gruenstaeudl • 20

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999

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Where is it possible to submit annotated eukaryote genomes?

genome annotation submission written 2.7 years ago by Eric Normandeau ♦ 9.7k • updated 2.6 years ago by Antonio R. Franco • 3.6k

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1.1k

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6 follow

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Forum: reviewing a paper with software/code I cannot run

forum open code open-access review submission written 2.8 years ago by Biomonika (Noolean) ♦ 3.0k

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1.0k

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Genbank submission error: ERROR: valid [SEQ_FEAT.CDSproductPackagingProblem] Protein product not packaged in nuc-prot set with nucleotide

genome error genbank submission written 3.2 years ago by fhsantanna • 390

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2.1k

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NCBI: batch upload WGS sequences linked to bioproject/biosample

ncbi wgs submission biosample bioproject written 3.4 years ago by ALchEmiXt • 1.9k

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1.9k

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Genbank sequence submission: tbl2asn Permission denied on Mac?

genbank tbl2asn submission denied written 4.0 years ago by jolespin • 100

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Recent Replies

A: Get sequences for KEGG by EC and taxa by natasha.sernova • 2.9k
It may be helpful: https://www.biostars.org/p/71737/ https://www.biostars.org/p/55962/ https:/...
C: Display full information about taxa instead of staxids in BLASTn by h.mon ♦ 13k
staxid means Subject Taxonomy ID staxids means unique Subject Taxonomy ID(s), sepa...
C: How to add tdtomato to mouse genome for RNA seq analysis by h.mon ♦ 13k
That is pretty much about it. Just check afterwards if tdtomato is appearing in your counts files.
C: Matching peptides which differ by one letter? by Alex Reynolds ♦ 23k
I added a `break` at the end of a pattern match. That should speed this up a bit, on the assumpti...
A: Matching peptides which differ by one letter? by h.mon ♦ 13k
For a problem like this one, it is unfathomable there is a python answer and not a perl answer. S...
C: Matching peptides which differ by one letter? by Alex Reynolds ♦ 23k
Thanks, should post a fix shortly.
C: Matching peptides which differ by one letter? by h.mon ♦ 13k
I think you are dividing `affinity_file2` by `affinity_file1`, and OP wants the other way around.
A: Matching peptides which differ by one letter? by Alex Reynolds ♦ 23k
#!/usr/bin/env python import sys import re f1 = 'file1.txt' f2 = 'f...
A: hierarchical cluster of drug treatment after correlation analysis by Kevin Blighe ♦ 16k
Check the distribution of your data first by generating a histogram. If it looks like that typic...
C: SNP dataset and Z Score by Ram ♦ 14k
We used to use <0.01% (not more than 1 in 10,000 alleles) as a rare variant cutoff. IMO 1% is ...
A: SNP dataset and Z Score by Kevin Blighe ♦ 16k
Your questions are not a nuisance, so, do not feel bad for asking. In association studies, the u...
A: How to extract from a fasta file, all the protein sequences that have more than by ayixon • 0
Solved. Thank you very much. The perl script worked fine.

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