User: Michel Edwar

gravatar for Michel Edwar
Michel Edwar70
Reputation:
70
Status:
Trusted
Location:
Sweden
Last seen:
1 month, 3 weeks ago
Joined:
4 years, 10 months ago
Email:
m*************@gmail.com

Posts by Michel Edwar

<prev • 24 results • page 1 of 3 • next >
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Hisat2 index mm10 download
... Hello, I wonder where I can download a Hisat2 mouse index as I might not have enough RAM to do it on the computer I have. Thank you ...
rna-seq hisat2 written 7 weeks ago by Michel Edwar70
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Comment: A: where to download mm9.fa masked?
... lol :) funny Thanks, I will try it. ...
written 8 weeks ago by Michel Edwar70
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6 follow
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where to download mm9.fa masked?
... Hello, I wonder if someone can direct me to a website, where I can download the mouse genome (9) masked for repeated regions.I think the UCSC website have masked files by chromosome, but not the whole fasta file. Thanks ...
genome chip-seq written 8 weeks ago by Michel Edwar70 • updated 7 weeks ago by simon.vanheeringen170
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Comment: C: How to get gene counts with HTseq
... Not all counts are zero. i checked some of the known genes and they are zeros, but the volcano plot looks normal ...
written 8 months ago by Michel Edwar70
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Comment: C: How to get gene counts with HTseq
... yes i checked that's what i get mus-genome.fa >10 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN for mkr-mus-genome.gtf, i get 1 havana exon 3073253 3074322 . + . exon_ ...
written 8 months ago by Michel Edwar70
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How to get gene counts with HTseq
... Ihave two conditions to compare. I am using HISAT2, sam tools and HTSEQ pipeline. However, I end up getting zero values for well known active genes in both WT and treated. I have viewed the output of the .bam files using IGV and it shows reads for these particular genes. Here is my code his ...
reads htseq counts rna-seq written 8 months ago by Michel Edwar70
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how to calculate gene probability from gene expression matrix
... i have an expression table like this sample1 sample 2 sample3 gene1 x1 x2 x3 gene2 y1 y2 y3 gene3 z1 z2 z3 how can i calculate the probability of gene 1 ? thanks ...
microarray rna-seq written 2.0 years ago by Michel Edwar70 • updated 2.0 years ago by Kevin Blighe51k
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how to normalize microarray expression set
... I have downloaded a database from GEO using getGEO and then converted it into ExpressionSets using GDS2eSet. Now I am trying to normalize it using rma. It gives me error :unable to find an inherited method for function ‘probeNames’ for signature ‘"ExpressionSet". Which function I showed use to norma ...
gds getgeo rma written 2.1 years ago by Michel Edwar70 • updated 7 months ago by Kevin Blighe51k
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Answer: A: I can not see BAM file in IGV
... I tried sorting and then indexing and now it is working samtools sort A.bam -o B.bam samtools index B.bam Thanks ...
written 2.5 years ago by Michel Edwar70 • updated 2.5 years ago by WouterDeCoster42k
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Comment: C: I can not see BAM file in IGV
... The version is I.G.V_2.3.93 I have tried chr10:65,266,569-65,287,741 ...
written 2.5 years ago by Michel Edwar70

Latest awards to Michel Edwar

Popular Question 7 months ago, created a question with more than 1,000 views. For Does PAML (codeml ) analysis include the introns or it correspond only to the CDS ?
Popular Question 8 months ago, created a question with more than 1,000 views. For Does PAML (codeml ) analysis include the introns or it correspond only to the CDS ?
Popular Question 8 months ago, created a question with more than 1,000 views. For what does the branch length computed with APE neighbor joining tree represent ?
Popular Question 2.0 years ago, created a question with more than 1,000 views. For what does the branch length computed with APE neighbor joining tree represent ?
Popular Question 2.0 years ago, created a question with more than 1,000 views. For how to get actual gene sequence after cufflinks
Popular Question 2.0 years ago, created a question with more than 1,000 views. For Are there any neanderthals genes predictions methods ?
Popular Question 2.5 years ago, created a question with more than 1,000 views. For ProtTest and PhyML
Scholar 2.5 years ago, created an answer that has been accepted. For A: I can not see BAM file in IGV

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