User: hafiz.talhamalik

Reputation:
110
Status:
Trusted
Location:
Pakistan
Twitter:
@hafizmuhdtalha
Last seen:
1 day, 9 hours ago
Joined:
3 years, 10 months ago
Email:
h***************@gmail.com

Posts by hafiz.talhamalik

<prev • 79 results • page 1 of 8 • next >
1
vote
1
answer
140
views
1
answers
Comment: C: how to create a gene co-expression network?
... try R package CoRegNet [1]https://bioconductor.org/packages/release/bioc/html/CoRegNet.html [Metascape] [1]: http://metascape.org/gp/index.html#/main/step1 ...
written 23 days ago by hafiz.talhamalik110
0
votes
0
answers
187
views
0
answers
Comment: C: Help with data from rna-seq
... you should elaborate your question. it's not clear. also as mentioned by @h.mon looks like you are mixing transcriptome and genome analysis ...
written 7 weeks ago by hafiz.talhamalik110
0
votes
0
answers
118
views
0
answers
Comment: C: Problem in featureCounts file.
... Yeah Thanks. got it. ...
written 7 weeks ago by hafiz.talhamalik110
0
votes
0
answers
118
views
0
answers
Comment: C: Problem in featureCounts file.
... looks like multiple location of same gene ...
written 7 weeks ago by hafiz.talhamalik110
1
vote
0
answers
118
views
0
answers
Problem in featureCounts file.
... I am using featureCounts for my RNA-seq data to get count matrix. but m facing some problem with my output file. Most of the file is fine but there are few lines which shows multiple chromosome number and length etc parameters so file becomes quite weired. few lines of Output file as follows L ...
featurecounts rna-seq written 7 weeks ago by hafiz.talhamalik110 • updated 7 weeks ago by genomax71k
0
votes
2
answers
173
views
2
answers
Comment: C: Differential Expression between 3 groups ?
... yes i want common DE genes. Thanks for the answer. ...
written 10 weeks ago by hafiz.talhamalik110
0
votes
2
answers
173
views
2
answers
Comment: C: Differential Expression between 3 groups ?
... That could be the one solution to do like this. but we have anova test for multiple sample testing. I m more interested in that if we could apply that for rna-seq analysis.. let me check DMRseq package as well. ...
written 10 weeks ago by hafiz.talhamalik110
5
votes
2
answers
173
views
5 follow
2
answers
Differential Expression between 3 groups ?
... How can i perform differential gene expression for 3 groups sample ? edgeR uses t-test which can be used for 2 groups. So how can I do it for 3 groups ? my experiment design is like Normal vs disease condition 1 vs disease condition 2 ...
R rna-seq edge-r written 10 weeks ago by hafiz.talhamalik110 • updated 10 weeks ago by ATpoint23k
0
votes
1
answer
170
views
1
answers
Answer: A: GATK Error Message: Invalid argument value 'RealignerTargetCreator at position'
... One more thing. GATK 4 doesn't have the option of TargetRealignmentCreator, so what's the alternate of it ? do we apply haplotype caller directly on marked-duplicate.bam file ? ...
written 3 months ago by hafiz.talhamalik110
0
votes
1
answer
170
views
1
answers
Comment: C: GATK Error Message: Invalid argument value 'RealignerTargetCreator at position'
... ok. let me try with this ...
written 3 months ago by hafiz.talhamalik110

Latest awards to hafiz.talhamalik

Student 27 days ago, asked a question with at least 3 up-votes. For Threshold of removing genes with low counts ?
Popular Question 4 months ago, created a question with more than 1,000 views. For Threshold of removing genes with low counts ?
Popular Question 15 months ago, created a question with more than 1,000 views. For Threshold of removing genes with low counts ?
Popular Question 15 months ago, created a question with more than 1,000 views. For Which package to use for RPKM/FPKM RNA-seq counts?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 906 users visited in the last hour