User: Za

gravatar for Za
Za10
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5 days, 22 hours ago
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4 weeks ago
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Posts by Za

<prev • 25 results • page 1 of 3 • next >
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Comment: C: Plotting Pearson correlation between two expression matrices
... But why said the (Read per million) in X axis? ...
written 9 days ago by Za10
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Comment: C: Plotting Pearson correlation between two expression matrices
... sorry my image was not visible? ...
written 9 days ago by Za10
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Combining different tasks in one line of code in terminal
... Hi, I have many **.xls** files containing my **read counts** I need to COMBINE these files while I must remove each row of each file containing "**`exon`**", removing **columns 1, 2, 3, 5, 6, 8** and removing `_mRNA` from the end of each row of **column 4** How I can do that in terminal? I thin ...
terminal sequencing written 10 days ago by Za10 • updated 10 days ago by shenwei3563.6k
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Comment: C: Defining genes explaining a principal component
... Thank you, Actually I don't know how to explore any batch effect or reason of this much of difference between bulk and sc seq. I have two experiments : R and T in 2, 4, 6, 8, 10, 12, 14 and 16h time points for each of experiments. If you consider, the track of development is appear from both R and T ...
written 10 days ago by Za10
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Comment: C: Using multiple gff files for featureCounts tool
... Sorry, The rate of assignation is too low || || Load annotation file annotation.gff ... || || Features : 61079 || ...
written 11 days ago by Za10
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Comment: C: Using multiple gff files for featureCounts tool
... Thanks a lot, adding `./` worked. Thanks again ...
written 11 days ago by Za10
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Comment: C: Using multiple gff files for featureCounts tool
... Sorry, newly whatever I am trying on featureCounts I am being stoped by dhcp179185:bin $ featureCounts -t exon -g gene_id -a annotation.gff -o counts.txt out2444_sorted.bam -bash: featureCounts: command not found dhcp179185:bin $ pwd /volumes/subread/subread-1.6.2-source/bin dh ...
written 11 days ago by Za10
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Comment: C: Defining genes explaining a principal component
... Thanks a lot, Actually I was going to detect the relationships of two experiments. Two developmental courses one done by bulk and another done by single cell seq. PCA says the samples are pretty different with each other (2h in bulk vs 2h in single cell seq). Then I am going to detect what is the re ...
written 11 days ago by Za10
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Sorting bam file in mac OS
... Hi, I don't know why I can't sort my bam files dhcp179185:unknown$ samtools sort SRR1593424.bam SRR1593424_sorted [bam_sort] Use -T PREFIX / -o FILE to specify temporary and final output files Usage: samtools sort [options...] [in.bam] Options: -l INT Set compression lev ...
software error rna-seq sequencing written 11 days ago by Za10 • updated 11 days ago by igor6.0k
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Comment: C: Using multiple gff files for featureCounts tool
... Sorry I obtained so; no raw read # Program:featureCounts v1.6.2; Command:"featureCounts" "-t" "exon" "-g" "gene_id" "-a" "chromosome_1.gff" "-o" "counts.txt" "SRR1593424.bam" Geneid Chr Start End Strand Length SRR1593424.bam DDB0232428;DDB0232428;DDB0232428;DDB0232428;DDB0232428;DDB02 ...
written 12 days ago by Za10

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