User: Picasa

gravatar for Picasa
Picasa540
Reputation:
540
Status:
Trusted
Location:
Last seen:
5 hours ago
Joined:
4 years, 5 months ago
Email:
p*********@gmail.com

Posts by Picasa

<prev • 304 results • page 1 of 31 • next >
0
votes
1
answer
91
views
1
answer
Assessing collapsed assembly ?
... Hi all, I have 2 different genomes and I am looking to assess if one assembly is more collapsed than the other one (example: if paralogues are collapsed in one assembly more than the other). Do you have any idea how can I do this ? I am also open to papers that have reported this problem too. ...
assembly collapsing paralogue written 7 weeks ago by Picasa540 • updated 6 weeks ago by colindaven2.3k
0
votes
0
answers
1.2k
views
0
answers
Comment: C: Create de novo repeat library
... Ok I see. I have also the Repbase database. Do you think it's useful to perform the step 2.3) Blast proteome against RepeatModeler library on it ? Because they are curated one so it's not necessary no ? The problem with Repbase is that the header is not formatted properly (ex: `>LINE1-11_SBi# ...
written 7 weeks ago by Picasa540
0
votes
0
answers
1.2k
views
0
answers
Comment: C: Create de novo repeat library
... Thanks for this guide @Juke34, 1) I am a bit confused about what to exclude from the proteome: I made an annotation with maker and should I exclude all genes that are more or less close to TEs ? (like transposase, gag, pol, endonuclease, reverse transcriptase) 2) I would like also to combine the R ...
written 7 weeks ago by Picasa540
0
votes
1
answer
6.1k
views
1
answers
Comment: C: RAxML outputs: which one I have to take ?
... Hi @Michael, Best-scoring ML tree with support values written to: RAxML_bipartitions.[run id] is bootstrap value ? I am interested in it, do you know how to display on figtree ? ...
written 9 weeks ago by Picasa540
0
votes
1
answer
346
views
1
answers
Comment: C: ONT fast5 basecalling
... Hi @WouterDeCoster, do you have a guide for basecalling using Guppy ? (I don't have access to the community page) ...
written 9 weeks ago by Picasa540
0
votes
2
answers
136
views
2
answers
Comment: C: Best way for phylogenetic tree with missing data
... Thanks, To infer the phylogeny, do you perform partition analysis with each gene coordinate ? ...
written 9 weeks ago by Picasa540
0
votes
1
answer
12k
views
1
answers
Comment: C: Polish PacBio assembly with latest PacBio tools : an affordable solution for eve
... how many rounds of Arrow would you recommend ? ...
written 9 weeks ago by Picasa540
0
votes
2
answers
136
views
2
answers
Comment: C: Best way for phylogenetic tree with missing data
... Thanks ! Do you have any recommendations for the trimming step ? ...
written 10 weeks ago by Picasa540
2
votes
2
answers
136
views
2
answers
Best way for phylogenetic tree with missing data
... Hi all, I have 50 species and 8 genes. My goal is to make a phylogenetic tree but the problem is that I don't have the 8 genes for all species. Some species have just one gene for example, and also most of the genes are fragmented (so for the same gene, the size is different between species). Wha ...
phylogenetic tree written 10 weeks ago by Picasa540 • updated 10 weeks ago by Mensur Dlakic6.0k
0
votes
1
answer
118
views
1
answers
Comment: C: Transcript or cds for phylogenetic tree ?
... Thanks for your answer. > Evolutionary constraints/conservation works mainly on those sequences I am not sure to understand this. Do you mean algorithm used by phylogenetic softwares (such as raxml or phyml or whatever) used model that worked with cds (dna level) and/or amino acid ? ...
written 11 weeks ago by Picasa540

Latest awards to Picasa

Popular Question 27 days ago, created a question with more than 1,000 views. For FASTA output in blast ?
Popular Question 7 weeks ago, created a question with more than 1,000 views. For FASTA output in blast ?
Great Question 12 weeks ago, created a question with more than 5,000 views. For RAxML outputs: which one I have to take ?
Popular Question 3 months ago, created a question with more than 1,000 views. For FASTA output in blast ?
Great Question 3 months ago, created a question with more than 5,000 views. For RAxML outputs: which one I have to take ?
Popular Question 4 months ago, created a question with more than 1,000 views. For FASTA output in blast ?
Great Question 5 months ago, created a question with more than 5,000 views. For LD pruning and other QC before association analysis ?
Popular Question 5 months ago, created a question with more than 1,000 views. For FASTA output in blast ?
Popular Question 7 months ago, created a question with more than 1,000 views. For database for fungus ?
Popular Question 7 months ago, created a question with more than 1,000 views. For FASTA output in blast ?
Popular Question 7 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 9 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 9 months ago, created a question with more than 1,000 views. For FASTA output in blast ?
Popular Question 9 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 9 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 10 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 11 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 11 months ago, created a question with more than 1,000 views. For Full header in blastn out6 format ??
Popular Question 11 months ago, created a question with more than 1,000 views. For database for fungus ?
Popular Question 12 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 12 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 12 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 13 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 13 months ago, created a question with more than 1,000 views. For mate pair trimming ?
Popular Question 13 months ago, created a question with more than 1,000 views. For mate pair trimming ?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1803 users visited in the last hour