User: Nunu

gravatar for Nunu
Nunu0
Reputation:
0
Status:
New User
Last seen:
1 day, 7 hours ago
Joined:
1 year, 3 months ago
Email:
f********@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 Nunu

<prev • 8 results • page 1 of 1 • next >
0
votes
1
answer
162
views
1
answer
BayesHammer in SPAdes
... Hello community, I'm using SPAdes to do de novo transcriptome assembly using RNA-seq (from Illumina). However, the new version SPAdes 3.14.1 has excluded the read error correction step for RNA-seq. So I want to use the BayesHammer which comes with SPAdes to do the error correction. However, I can't ...
assembly rna-seq written 3 months ago by Nunu0 • updated 12 days ago by ponganta50
0
votes
0
answers
156
views
0
answers
saturated dS values on selection study using codeml
... Hello. Thanks for your help! I'm using codeml to test patterns of selection among different species with a group genes. I have noticed in many research paper that genes need to be filtered with dn/ds>3 or ds<0.01 which will make the analysis inaccurate. In my case, I have noticed this problem ...
saturation codeml written 8 months ago by Nunu0
0
votes
0
answers
375
views
0
answers
how to use trimal to trim codon sequences
... I'm at the stage of trimming my codon sequences for codeml and I want to trim it using Trimal. However, I can't find any option in trimal to indicate the format of the sequences. Alternatively, Trimal can align for protein sequences, but there is no option to get which sites were trimmed out, which ...
trimal alignment codeml written 12 months ago by Nunu0 • updated 9 months ago by Biostar ♦♦ 20
0
votes
0
answers
1.1k
views
0
answers
Comment: C: trim galore for 10Xgenomics
... thanks. I will use Supernova. Do I need to do trimming first? In my file, there are 3 files, one index file and one paired end read files. I only have one sample, so I don't need to care about the index file and just proceed with the paired end reads. Is this correct? After checking supernova, I wil ...
written 15 months ago by Nunu0
0
votes
0
answers
1.1k
views
0
answers
Comment: C: trim galore for 10Xgenomics
... Thanks, do you know what should I do with these indexes? Also, do I need to figure out first the diploidy state of my targeted species to use a certain assembly software? ...
written 15 months ago by Nunu0
0
votes
0
answers
1.1k
views
0
answers
Comment: C: trim galore for 10Xgenomics
... hi, thanks a lot for the information. Yes, I'm doing de novo assembly. I have checked this website but it seems that they only recommend using supernova for diploid species, and mine is not diploid.. So I have to try using other assembly pipelines. The targeted genome is around 1Gb, for now, I want ...
written 15 months ago by Nunu0
0
votes
0
answers
1.1k
views
0
answers
Comment: C: trim galore for 10Xgenomics
... Thanks a lot! My data is genomics data from protozoa, so I can't follow single cell RNA seq pipelines. I only have one folder since it's sequenced long time ago but another technician. I used the following to check the index file bioawk -cfastx '{print($seq)}' mysample_I1_001.fastq.gz | \ ...
written 15 months ago by Nunu0 • updated 15 months ago by GenoMax95k
5
votes
0
answers
1.1k
views
0
answers
trim galore for 10Xgenomics
... Hello helpers, I just got raw reads from 10Xgenomics and started to do trimming and assembly. I’m new to this technology and have some basic questions below. Basically, I want to use software trim galore for trimming first and have clarify these first so as to choose proper options. 1, I only have ...
genome assembly sequencing written 15 months ago by Nunu0

Latest awards to Nunu

Popular Question 16 days ago, created a question with more than 1,000 views. For trim galore for 10Xgenomics

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2130 users visited in the last hour
_