User: ahmad mousavi

gravatar for ahmad mousavi
ahmad mousavi470
Reputation:
470
Status:
Trusted
Location:
Royan Institute, Tehran, Iran
Website:
https://www.linkedin.c...
Last seen:
18 hours ago
Joined:
3 years, 9 months ago
Email:
a*************@gmail.com

Posts by ahmad mousavi

<prev • 70 results • page 1 of 7 • next >
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Comment: C: How to make GFF file based on assembled transcriptome and genome sequence?
... Yes we done Maker before, but our genome is partial too, so at the moment we performed Trinity and we have to make GFF based on Genome file. the gmap gff3 output is also good but I have no idea how to merged that with genome sequence to find exon, intron and TSS regions? ...
written 3 days ago by ahmad mousavi470
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Comment: C: How to make GFF file based on assembled transcriptome and genome sequence?
... great thanks, the problem is that my genome is also not complete too.the current pipeline cannot find the exact region such as TSS or Exon,.... Do you have any idea about softwares which could determine those regions? tnx. ...
written 6 days ago by ahmad mousavi470
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How to make GFF file based on assembled transcriptome and genome sequence?
... Hi I have made an denovo transcriptome using Trinity and also the specie has the draft genome too. For next projects ., We want to make GFF/GTF based on both assembled transcriptome and draft genome. Actually, I need to know coordination of genes based on draft genome sequence position. How can ...
assembly chip-seq rna-seq sequencing written 15 days ago by ahmad mousavi470 • updated 15 days ago by h.mon29k
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Comment: C: How to merge microarray and RNA-SEQ expression data for DEG analysis?
... thanks a lot, Kevin. ...
written 15 months ago by ahmad mousavi470
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How to merge microarray and RNA-SEQ expression data for DEG analysis?
... Dear all, I'm doing a project which I have to use two separate project on GEO, one of them is Agilent array and second is RNA-Seq. I've searched a lot, but there were no straightforward answer to my question. Because both condition samples are not available in a single project I have to use diffe ...
expression microarray rna-seq written 15 months ago by ahmad mousavi470 • updated 15 months ago by Kevin Blighe56k
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Answer: A: Differential expression analysis on miRNA count files
... Hi First use HTSeq-count program on Human miRNA GTF file (in mirbase website) to get a count matrix from bam/sam files. Then you could use DESeq2 or edgeR for DE analysis on miRs. ...
written 15 months ago by ahmad mousavi470
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What is the best pipeline for analyzing Non-invasive prenatal (NIPT) data?
... Dear all, I want to do analysis on NIPT data, Does anyone know about which software/pipeline is best for **NIPT data analysis**? Tnx ...
genome next-gen alignment written 15 months ago by ahmad mousavi470 • updated 12 months ago by hamidah10
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How much data and how many libraries do we need for de-novo assembly?
... Hi Could you please explain how many libraries (with different insert-sizes) and how much data per library we need for having a good coverage for a denovo genome? How could we define it? For example: 1- What is optimal number of above issue for Bacteria (4-7Mb size)? 2- What is optimal number ...
genome assembly next-gen sequencing written 16 months ago by ahmad mousavi470 • updated 16 months ago by Carambakaracho2.0k
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Comment: C: Too many contig after genome assembly with Spades
... No, I don't understant of relationship of fastq file. With smaller kmer I got more contigs. ...
written 16 months ago by ahmad mousavi470
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Comment: C: Too many contig after genome assembly with Spades
... Spades let you to define several kmers and it automatically select one based on data structure. So I have constant no. of contigs. ...
written 16 months ago by ahmad mousavi470

Latest awards to ahmad mousavi

Popular Question 8 weeks ago, created a question with more than 1,000 views. For Converting Blast output to GFF
Popular Question 10 weeks ago, created a question with more than 1,000 views. For How to make k-means clustering plot for relative expression?
Popular Question 3 months ago, created a question with more than 1,000 views. For Problem with annovar in GATK4 output
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Popular Question 12 months ago, created a question with more than 1,000 views. For What are the best tools for visualizing DNA methylation result?
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Popular Question 12 months ago, created a question with more than 1,000 views. For Easy way to do GO enrichment in R
Popular Question 12 months ago, created a question with more than 1,000 views. For Error in methylKit in DMR analysis
Popular Question 12 months ago, created a question with more than 1,000 views. For tophat2 "Broken pipe error"
Popular Question 12 months ago, created a question with more than 1,000 views. For How to do feature selection using PCA?
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: How to make k-means clustering plot for relative expression?
Appreciated 13 months ago, created a post with more than 5 votes. For Showing up and down regulated GO and pathway using enrichR and ggplot2
Scholar 16 months ago, created an answer that has been accepted. For A: Extract a word from inside the text
Appreciated 16 months ago, created a post with more than 5 votes. For Showing up and down regulated GO and pathway using enrichR and ggplot2
Scholar 16 months ago, created an answer that has been accepted. For A: Extract a word from inside the text
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: How to make k-means clustering plot for relative expression?
Scholar 16 months ago, created an answer that has been accepted. For A: Extract a word from inside the text
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: How to make k-means clustering plot for relative expression?
Popular Question 18 months ago, created a question with more than 1,000 views. For Using gVCF mode in HaplotypeCaller ( GATK4)
Popular Question 18 months ago, created a question with more than 1,000 views. For Easy way to do GO enrichment in R
Popular Question 21 months ago, created a question with more than 1,000 views. For Easy way to do GO enrichment in R

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