User: genomics_student

Reputation:
0
Status:
New User
Last seen:
4 weeks, 1 day ago
Joined:
1 year ago
Email:
b************@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 genomics_student

<prev • 9 results • page 1 of 1 • next >
0
votes
0
answers
98
views
0
answers
Comment: C: How to make bed file of TSS (approximately 2kb, 1 kb upstream and 1kb downstream
... Good day Sir, Thank you again for your reply. I understood what you're saying and tried to write it in a perl script: module load perl open (IN, "mm10_NCBI-RefSeq.bed"); open (OUT, ">DEGs_promoters.bed"); while () { @data = split(/\t/,$_); @strand = split(/\(|\)/,$data[-1]); ...
written 29 days ago by genomics_student0
0
votes
0
answers
98
views
0
answers
Comment: C: How to make bed file of TSS (approximately 2kb, 1 kb upstream and 1kb downstream
... Hello Sir, Thank yo for taking time in reading my question. Let's say I have identified Adora1(-) and Cflar(+) as DEGs. Next, I want to make a promoter bed file of these genes with 2kb length, 1kb upstream and 1kb downstream from TSS. Thus, I want to have a script which shows subtraction from chr s ...
written 29 days ago by genomics_student0
1
vote
0
answers
98
views
0
answers
How to make bed file of TSS (approximately 2kb, 1 kb upstream and 1kb downstream) of genes
... Hello, I am a beginner in bioinformatics in general, so please excuse my question if it seems easy to you. I have identified differentially expressed genes using Deseq2. Next, I want to create a bed file containing these genes and around 2kb region of the promoter region, 1kb upstream and 1 kb dow ...
tutorial rna-seq written 29 days ago by genomics_student0 • updated 29 days ago by Istvan Albert ♦♦ 84k
2
votes
2
answers
329
views
2
answers
How to Analyze Overlapping Peaks of ChIP-Seq Data using Perl Programming
... I have already obtained a narrow peak file of my mouse sample using macs2. Next, I want to analyze now the overlapping peaks between my sample (per chromosome) and the mouse reference genome, specifically in the TSS. In other words, I wanna identify if which peaks lie on the mouse promoter region. ...
perl chip-seq overlapping peaks written 12 months ago by genomics_student0
0
votes
1
answer
487
views
1
answers
Comment: C: Perl Programming - How to join two columns of a text file, in which values of th
... Thank you very much again! :) ...
written 12 months ago by genomics_student0
0
votes
1
answer
487
views
1
answers
Comment: C: Perl Programming - How to join two columns of a text file, in which values of th
... Thank you so much for all the tips! I am very beginner in Perl language. As a student, I am required to learn it. Reading the basic Perl manuals has been not easy for me to generate and manipulate codes. ...
written 12 months ago by genomics_student0
0
votes
1
answer
487
views
1
answers
Comment: C: Perl Programming - How to join two columns of a text file, in which values of th
... Thank you very much! I see, '+-' would match data 9 (gene name) with its corresponding difference (of data 5 and data 6). ...
written 12 months ago by genomics_student0
0
votes
1
answer
487
views
1
answers
Comment: C: Perl Programming - How to join two columns of a text file, in which values of th
... The processing of the file line by line is the obtaining the difference of data 7- data 6. However, my problem is how to affix the corresponding gene name or gene id which is in column 10. Looping or joining the columns in order using Perl code is what I'm figuring out right now. Thank you! ...
written 12 months ago by genomics_student0
3
votes
1
answer
487
views
7 follow
1
answer
Perl Programming - How to join two columns of a text file, in which values of the first column should match in order with the values of the second column
... I am a beginner with Perl programming. The problem I am working on right now is how to get the gene length from a text file. Text file contains the gene name (column 10), start site (column 6), end site (column 7). The length can be derived from the difference of column 6 and 7. But my problem is ho ...
genome gene sequence written 12 months ago by genomics_student0 • updated 12 months ago by SMK1.9k

Latest awards to genomics_student

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: 695 users visited in the last hour