User: yaghoub.amraei

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3 months ago
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Posts by yaghoub.amraei

<prev • 11 results • page 1 of 2 • next >
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trim data with trimmomatic
... hi all i have 21 sample from RNA-seq single end. i want trim that with trimmomatic. whether i can use command for. for f in *.fastq; do java -jar ~/sratoolkit.2.9.6-ubuntu64/apps/Trimmomatic-0.39/trimmomatic-0.39.jar SE -baseout ${f/.fastq} HEADCROP:30 LEADING:30 TRAILING:30 MINLEN:36; done ...
rna-seq written 3 months ago by yaghoub.amraei10 • updated 3 months ago by kristoffer.vittingseerup2.2k
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Comment: C: htseq-count no result give me
... [enter link description here][1] [1]: http://yaghoub.com/gtffile ...
written 3 months ago by yaghoub.amraei10
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Comment: C: htseq-count no result give me
... No results meaning blank file ...
written 3 months ago by yaghoub.amraei10
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htseq-count no result give me
... hi all i have work with htseq-count. but no give output for me. yghb@yghb-virtual-machine:~/amraei/count$ htseq-count -f bam ~/amraei/bam-file/A1.bam ~/amraei/gene/Zea_mays.B73_RefGen_v4.42.gtf > A1-count.txt ...
rna-seq written 3 months ago by yaghoub.amraei10 • updated 3 months ago by RamRS23k
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database for ITAP
... hi all. Whether there is a database or software for the Intron targeted amplified polymorphism (ITAP). thanks a lot ...
genome written 3 months ago by yaghoub.amraei10 • updated 11 weeks ago by Biostar ♦♦ 20
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Comment: C: merge transcripts id from results trinity
... thanks .. how can i perform from R or Excel... ...
written 5 months ago by yaghoub.amraei10
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merge transcripts id from results trinity
... Hi all, how can i merge trinscript id from results de novo assembly with trinity . i have givie correlation between Transcript and LncRNA and result too much. so i have remove same isoforms with R. thanks alot Var1 Var2 Freq TRINITY_DN17567_c0 ...
R rna-seq trinity written 5 months ago by yaghoub.amraei10 • updated 5 months ago by h.mon26k
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Comment: C: co-expresson network between LncRNA-mRNA
... Now, how can I get the modules according to correlation? ...
written 5 months ago by yaghoub.amraei10
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(Closed) co-expresson network between LncRNA-mRNA with 4 samoles
... Hi all how can perform co-expression analysis with 4 samples in R Or a package with this number of sample give me p.value.. thanks ...
R rna-seq written 5 months ago by yaghoub.amraei10
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co-expresson network between LncRNA-mRNA
... Hi.all l have four samples from four experiments. 5021 genes that are folding change more than 2 and 2317 long coding RNA. How can I make a co-expression with this data? thanks a lot ...
R written 5 months ago by yaghoub.amraei10 • updated 5 months ago by peter.langfelder20

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