User: Michel Edwar

gravatar for Michel Edwar
Michel Edwar60
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60
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Trusted
Location:
Sweden
Last seen:
3 days, 21 hours ago
Joined:
4 years, 2 months ago
Email:
m*************@gmail.com

Posts by Michel Edwar

<prev • 21 results • page 1 of 3 • next >
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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 7 days ago by Michel Edwar60
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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 7 days ago by Michel Edwar60
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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 9 days ago by Michel Edwar60
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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 16 months ago by Michel Edwar60 • updated 16 months ago by Kevin Blighe39k
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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 norm ...
gds getgeo rma written 17 months ago by Michel Edwar60 • updated 17 months ago by e.rempel740
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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 22 months ago by Michel Edwar60 • updated 22 months ago by WouterDeCoster37k
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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 22 months ago by Michel Edwar60
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I can not see BAM file in IGV
... I have uploaded a bam file with index into IGV and I only see the reference gene but not my actual bam file. when i try to zoom in , I get this error message. Error encountered querying alignments: java.lang.IllegalArgumentException: Size exceeds Integer.MAX_VALUE I have tried using sam tools to v ...
methylation igv written 22 months ago by Michel Edwar60
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is there a program to predict homophilic vs heterophilic binding of proteins
... I have a protein sequence, and I want to determine if it has homophilic or heterophilic binding abilities  ...
binding protein written 3.2 years ago by Michel Edwar60 • updated 3.2 years ago by jr12140
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how can you say if two orthologous proteins belong to the same family
... If there are  two orthologous sequences from two different species. Does that necessarily mean , they belong to the same family?  thanks   ...
phylogenetics evolution written 3.2 years ago by Michel Edwar60

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Popular Question 9 days 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 16 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 16 months ago, created a question with more than 1,000 views. For how to get actual gene sequence after cufflinks
Popular Question 16 months ago, created a question with more than 1,000 views. For Are there any neanderthals genes predictions methods ?
Popular Question 22 months ago, created a question with more than 1,000 views. For ProtTest and PhyML
Scholar 22 months ago, created an answer that has been accepted. For A: I can not see BAM file in IGV

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