User: Ashley

gravatar for Ashley
Ashley50
Reputation:
50
Status:
Trusted
Location:
China
Twitter:
ashley199305
Last seen:
2 days, 14 hours ago
Joined:
3 years, 7 months ago
Email:
l***********@gmail.com

Posts by Ashley

<prev • 62 results • page 1 of 7 • next >
0
votes
3
answers
1.8k
views
3
answers
Comment: C: How to calculate "Tissue specificity score" using JSD
... Thank you very much. ...
written 4 weeks ago by Ashley50
0
votes
2
answers
107
views
2
answers
Answer: A: How Can I Merge Intervals ?
... I know how to calculate this one. Just using groupby function and pd object. df.groupby(col2 and col3).apply(lambda x: np.average(col7, weights=col8)) ...
written 11 weeks ago by Ashley50
0
votes
2
answers
107
views
2
answers
Answer: A: How Can I Merge Intervals ?
... I think pandas and numpy models are suit for our analysis. ...
written 11 weeks ago by Ashley50
0
votes
2
answers
107
views
2
answers
How Can I Merge Intervals ?
... I want to merge intervals using weighted means instead of sum or average. Thanks for taking your time to read this file. My input data: data format: chrFileA startFileA endFile1 chrFile2 startFile2 endFile2 value TheLengthOfOverlap chr1 12000 13000 chr1 1298 ...
sequencing written 11 weeks ago by Ashley50
0
votes
0
answers
254
views
0
answers
Comment: A: How to calculate dinucleotide A/T patterns in a given human reference genome reg
... ![my example is:][1] (original link: https://www.dropbox.com/s/h8de0hcc8vc193t/data.jpg?dl=0 ) [1]: https://ucec75035bc491864dd23f9f514e.previews.dropboxusercontent.com/p/thumb/AAWM3Y5PRY16HjGCuFMaUrWBTLH_Mcdpo6T8NvJvTGzG_0_AayTbA96F-d2vRAo2aZwtb-0OYf9M3gekXhc1_ifFGLapSZVA6VdgseiFecVmf1Y8deKVQg3U ...
written 5 months ago by Ashley50 • updated 3 months ago by Devon Ryan90k
0
votes
0
answers
254
views
0
answers
Comment: C: How to calculate dinucleotide A/T patterns in a given human reference genome reg
... For our example, > consensusMatrix(dinucleotideFrequency(DNA.set)) [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [,11] [,12] [,13] [,14] [,15] [,16] 0 2 3 2 2 3 1 0 0 2 0 3 1 0 0 2 1 1 0 0 1 3 1 1 ...
written 5 months ago by Ashley50
0
votes
0
answers
254
views
0
answers
Comment: C: How to calculate dinucleotide A/T patterns in a given human reference genome reg
... > dinucleotideFrequency(DNA.set) AA AC AG AT CA CC CG CT GA GC GG GT TA TC TG TT [1,] 2 0 1 1 0 1 2 1 1 1 1 2 1 3 1 1 [2,] 0 2 2 1 2 2 1 1 1 1 0 1 2 1 1 1 [3,] 2 2 0 0 1 0 2 2 0 1 3 2 1 1 2 0 [4,] 0 0 0 1 0 5 1 5 ...
written 5 months ago by Ashley50
1
vote
0
answers
254
views
0
answers
How to calculate dinucleotide A/T patterns in a given human reference genome region?
... library("Biostrings") I want to calculate the probability of di-nucleotide AA, TT, AT, and TA in each 2 location. My DNA sequence is as follows: DNA.set A DNAStringSet instance of length 5 width seq names ...
R sequence written 5 months ago by Ashley50 • updated 3 months ago by Biostar ♦♦ 20
0
votes
1
answer
159
views
1
answers
Answer: A: How to compute the mono-nucleotide position specific frequency matrix and plot f
... In fact, I obtained the x-axis. However, I don't know how to construct the position specific frequency matrix (PSFM). The details are as follows: [enter link description here][1] [1]: https://www.dropbox.com/s/5bmnkbrf0aja705/PSFM.jpg?dl=0 But I couldn't understand it's meaning. ...
written 5 months ago by Ashley50
0
votes
1
answer
159
views
1
answer
How to compute the mono-nucleotide position specific frequency matrix and plot for it
... [enter link description here][1] [1]: https://www.dropbox.com/s/93oc61m107bl174/Fig.jpg?dl=0 The figure comes from the paper (Fig.1): https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1000834 The x-axis represents for the dyad's location (the middle of nuclesome), while ...
mnase-seq nuclosome written 5 months ago by Ashley50

Latest awards to Ashley

Popular Question 5 months ago, created a question with more than 1,000 views. For How to calculate "Tissue specificity score" using JSD
Scholar 5 months ago, created an answer that has been accepted. For C: Questions About How to Plot NOMe-seq Plot
Popular Question 10 months ago, created a question with more than 1,000 views. For How to calculate "Tissue specificity score" using JSD

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 935 users visited in the last hour