User: davidfarr01

gravatar for davidfarr01
davidfarr0110
Reputation:
10
Status:
New User
Location:
Last seen:
1 day, 1 hour ago
Joined:
3 months, 1 week ago
Email:
d**********@gmail.com

Posts by davidfarr01

<prev • 8 results • page 1 of 1 • next >
0
votes
0
answers
85
views
0
answers
Comment: C: Explanation? Read depth, quality, and assembly accuracy in Methylome analysis co
... In that case is there any benefit or drawback if someone was in a situation where their sequencing quality was like 96% but their assembly quality was high? ...
written 15 days ago by davidfarr0110
0
votes
0
answers
85
views
0
answers
Explanation? Read depth, quality, and assembly accuracy in Methylome analysis context
... I'm new to these type of analyses, so I wanted to check and see if someone could explain a couple things for me. I'm in the stages of PoolSeq using Nanopore to call the methylome to look for divergent regions of methylation. I know that each means - average read depth, read quality, and assembly, b ...
genome assembly forum methylation written 15 days ago by davidfarr0110
0
votes
1
answer
305
views
1
answers
Comment: C: Struggling to filter data with R, tidyverse
... Perfect! This and the SQL query as provided in another response worked, but this one worked in less than a minute. Great! ...
written 3 months ago by davidfarr0110
0
votes
1
answer
305
views
1
answers
Comment: C: Struggling to filter data with R, tidyverse
... Thank you, this did work. It is worth noting that this vs. the foverlap code provided by zx8754 has a striking difference in computing time. Although SQL in usually a really efficient language, it took over 30 minutes (I went to bed) to complete the SELECT statement as for example the actual 'DD' da ...
written 3 months ago by davidfarr0110
0
votes
1
answer
305
views
1
answers
Comment: C: Struggling to filter data with R, tidyverse
... This one is a little new... I followed the link in the answer using foverlap to try and replicated with the following code: install.packages("data.table") require(data.table) setkey(UU) DD[, start := end] foverlaps(DD, UU, by.x = names(DD), type = "within", mult = "all", nomatch ...
written 3 months ago by davidfarr0110 • updated 3 months ago by Devon Ryan88k
0
votes
1
answer
305
views
1
answers
Comment: C: Struggling to filter data with R, tidyverse
... I've edited it to add code for a basic pair of data sets. Let me know if this works - the goal was to make sure there was overlap and that they weren't even. ...
written 3 months ago by davidfarr0110
7
votes
1
answer
305
views
1
answer
Struggling to filter data with R, tidyverse
... Question: How do I subset data with the following conditions? The the data must match one column (say, a chromosome), and one other column must fit in a range provided by two columns of another data set? Background: I have two treatment groups, with columns like chromosome#, start, and stop positio ...
genome R methylation written 3 months ago by davidfarr0110 • updated 3 months ago by zx87546.5k
0
votes
0
answers
175
views
0
answers
Analysis of variation in methylation patterns based on log-likelihood ratio statistic
... Hi there! I'm trying to get some pointers on where to start on the analysis of my dataset. First, some basic info: Background: We performed Nanopore sequencing of two poolseq samples called UU and DD referring to damage vs undamaged. We were able to obtain approximately 3x coverage (this is currentl ...
R methylation statistics written 3 months ago by davidfarr0110

Latest awards to davidfarr01

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: 1903 users visited in the last hour