User: erica.fary

gravatar for erica.fary
erica.fary0
Reputation:
0
Status:
New User
Last seen:
3 years, 6 months ago
Joined:
5 years, 7 months ago
Email:
e*********@gmail.com

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by erica.fary

<prev • 6 results • page 1 of 1 • next >
0
votes
0
answers
2.1k
views
0
answers
Comment: C: Retrieve nt sequence of chloroplaste genes (NCBI query with gene name and taxon
... Sorry, my edit was not so clear... I would like to do this for all results returned by the query "ycf2[Gene Name] AND txid4097[Organism]", NC_001879.2 was just an example.. I tried also this command (ideally I would like gene sequences in fasta format) : esearch -db nuccore -query "ycf2[Gene Name] ...
written 4.4 years ago by erica.fary0
0
votes
0
answers
2.1k
views
0
answers
Retrieve nt sequence of chloroplaste genes (NCBI query with gene name and taxon ID)
... Hello everyone, I encounter the following problem: I have a list of chloroplast gene IDs and a list of taxonomic IDs, and I want to retrieve for each organism all the nucleotide sequences of the gene list. This seems pretty simple: I "just" want to retrieve all sequences in fasta format. It is not ...
ncbi gene sequence database written 4.4 years ago by erica.fary0
0
votes
0
answers
1.9k
views
0
answers
Pairwise distances DNA sequences (K80 model of DNA evolution) [Python]
... Hi everyone, I need to build phylogenetic tree based on aligned DNA sequences. I used first from Bio.Phylo the following functions: distM = DistanceCalculator('ident').get_distance(my_aligned_sequences) tree = DistanceTreeConstructor().nj(distM) However, I would like to compare the sequences u ...
phylogeny python sequence written 5.3 years ago by erica.fary0 • updated 5.2 years ago by Biostar ♦♦ 20
0
votes
0
answers
1.4k
views
0
answers
Export phylogenetic tree from "official" trees available on internet
... Hello everyone ! For my project, I need to import in a Python program mtDNA and Y-STR haplogroups trees like the ones available at http://www.phylotree.org/tree/main.htm and http://www.isogg.org/tree/ respectively. Does everyone know if it is possible to extract these in newick, phyloxml, NEXUS or ...
phylogeny python written 5.4 years ago by erica.fary0 • updated 5.4 years ago by Biostar ♦♦ 20
1
vote
1
answer
1.0k
views
1
answer
Retrieve taxon age from Ensembl
... Hi everyone, I need  to retrieve the age of the taxons that you can see when you click on the gene tree on Ensembl (e.g. here : http://www.ensembl.org/Danio_rerio/Gene/Compara_Tree?db=core;g=ENSDARG00000062209;r=17:22087864-22117363)  in million of years (e.g. Bilateria 937 MYA). Has anyone an idea ...
ensembl gene age written 5.6 years ago by erica.fary0 • updated 5.6 years ago by abascalfederico1.1k
0
votes
0
answers
1.2k
views
0
answers
retrieve phyletic age of genes from ensembl database
... Hi everyone, I need to retrieve the phyletic age (in million of years) of all the (protein-coding) genes for many organisms. I have been told that I could extract this from the Ensembl database using Perl API or MySQL query. However, I didn't find any information about how to do this (for this spec ...
gene ensembl database written 5.6 years ago by erica.fary0

Latest awards to erica.fary

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1687 users visited in the last hour
_