User: kimkes25

gravatar for kimkes25
kimkes2510
Reputation:
10
Status:
New User
Location:
Israel
Website:
https://www.linkedin.c...
Last seen:
4 days, 21 hours ago
Joined:
4 months, 4 weeks ago
Email:
k*******@gmail.com

kimk@mail.tau.ac.il

Posts by kimkes25

<prev • 22 results • page 1 of 3 • next >
1
vote
0
answers
72
views
0
answers
tsv file genome coverage
... Hello, I have a tsv file that looks like this : ![file][1] picture sharing I want to know what is the file's coverage of the genome. The data in it represents cut sites of crisper cas9 in T cells. I tried to follow [this][2] post, but it always gives the same answer for any input in tsv format. c ...
genome tsv written 6 days ago by kimkes2510 • updated 3 days ago by Biostar ♦♦ 20
1
vote
0
answers
151
views
0
answers
Sources for DNA accessibility data for certain Orgnisms
... Hello. I am looking for dna accessbility data (dnase-seq,atac-seq) for these Orgnisms and cells: Orgnism Cell Hamster CHO K1 Tomato tomato protoplasts Tomato tomato hairy roots Soybean soybean protoplasts Soybean soybean hairy roots Banana Banana protoplasts P ...
encode dnase-seq atac-seq written 10 weeks ago by kimkes2510 • updated 10 weeks ago by ATpoint45k
0
votes
0
answers
116
views
0
answers
NarrowPeak files empty fields ENCODE
... Hello. I am new to the subject of dna accessibility and have a project concerning dnase-seq results . My task is to find accesability data for 5 different cell types. Now,I know how to work with narrowpeak file format ([here][1] more about it). What I currently do with it is: - index the file ...
bed dnase-seq narrowpeak written 11 weeks ago by kimkes2510
0
votes
2
answers
161
views
2
answers
Comment: C: coverage of dnase-seq narrow peak file of genome
... Thank you , I will try it this way too! ...
written 12 weeks ago by kimkes2510
0
votes
2
answers
161
views
2
answers
Comment: C: coverage of dnase-seq narrow peak file of genome
... Thanks! I will try this ...
written 12 weeks ago by kimkes2510
2
votes
2
answers
161
views
2
answers
coverage of dnase-seq narrow peak file of genome
... Hello. I want to know what percentage of the genome ( assembly hg19) is covered by the intervals in a bed file. is there a way you know? I saw some functions in bedtools but they dont do it directly. Thanks! ...
bed dnase-seq coverage written 12 weeks ago by kimkes2510 • updated 12 weeks ago by ATpoint45k
0
votes
0
answers
246
views
0
answers
Comment: C: Databases for genome accessibility
... you are totally right. I just upvoted answers! Thank for the comment! I fixed my post. also ataq-seq will be great! My goal is to find experiment results for a list of cells that has accessability scores for the genome. after I have that, I will check the correlation between open areas to crispers ...
written 4 months ago by kimkes2510
0
votes
0
answers
246
views
0
answers
Databases for genome accessibility
... Hello. I am looking for dnase-seq resuls for certain cell types in narrow peak format. I tried to find results on ENCODE and UCSC with no success. Where else should I look for it? Do you know any other databaese online? Thanks ...
dnase encode accessibility ucs written 4 months ago by kimkes2510 • updated 3 months ago by Biostar ♦♦ 20
0
votes
0
answers
135
views
0
answers
help with finding dnase resuls for certain cell types
... Hello. I would like to find dnase-seq resuls for certain cell types in [narrow peak format.][1] I found in [this][2] link the results for **hek293** cell type > wgEncodeOpenChromDnaseHek293tPk.narrowPeak.gz 03-Feb-2012 12:28 1.9M I would like to find this kind of r ...
dnase narrow peak written 4 months ago by kimkes2510
3
votes
1
answer
226
views
5 follow
1
answer
Learning how to use Samtools
... Hello. I am working with narrowpeak and bed files. I want to use samtools in order to index( tabix) the files. I want to use it also in order to conduct queries on my files. The documentation in the website is not so informative and doesn't refer my type of files directly. How can I learn how t ...
samtools written 4 months ago by kimkes2510 • updated 4 months ago by ATpoint45k

Latest awards to kimkes25

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: 1493 users visited in the last hour
_