User: 1106518271

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110651827130
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Posts by 1106518271

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Comment: C: To do two kind of variables to do differential expression analysis
... Thanks! What's more, for id list (my row of matrix), recommend use mRNA id expresion or gene id expression in general? ...
written 5 weeks ago by 110651827130
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To do two kind of variables to do differential expression analysis
... A toy example: health mouse: tissue a(replication 3), tissue b(replication 9). disease mouse: tissue a(replication 5), tissue b(replication 6). For health_a_1, health_a_2, health_a_3, health_b_1...each do RNA-seq, got their RPKM list I hope to see tissue a has differences in expression bet ...
R next-gen rna-seq written 5 weeks ago by 110651827130 • updated 5 weeks ago by zx87545.0k
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The problem of atac-seq analysis process steps with macs2
... ![enter image description here][1] Check with this fig, I'm so confused about these 1. I think signal generation step is not belong to macs2, since it is refer to mapping result, mapping let us know generated signal. 1. And peak calling is a function of macs2 but not mark here, actua ...
chip-seq atac-seq written 6 weeks ago by 110651827130 • updated 6 weeks ago by Devon Ryan84k
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Comment: C: How can I get the ordered names or new matrix according to cluster result?
... I see, so kind of you, truly inspirational! ...
written 10 weeks ago by 110651827130
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Comment: C: How can I get the ordered names or new matrix according to cluster result?
... I seeked this command a long time, thanks! ...
written 10 weeks ago by 110651827130
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Comment: C: How can I get the ordered names or new matrix according to cluster result?
... I wonder can I get gene names or matirx sorted as: #like cluster dendrogram shows from Left to Right: Gene 31 Gene 45 Gene 26 Gene 3 Gene 25 Gene 33 ... Gene 50 Gene 46 Gene 35 Gene 36 ...
written 10 weeks ago by 110651827130
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Comment: C: How can I get the ordered names or new matrix according to cluster result?
... I see, very clear! Thanks! ...
written 10 weeks ago by 110651827130
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How can I get the ordered names or new matrix according to cluster result?
... To cluster matirxmy, for this to see which colnames can divided into groups. d <- dist(matirxmy, method = "euclidean") #dim(matixmy) 232, 121 hc <- hclust(d) **Also, it can be plot like the first figure**![enter image description here][1] **My question is for tree like figure sho ...
R next-gen written 10 weeks ago by 110651827130 • updated 10 weeks ago by Kevin Blighe28k
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Comment: C: how can I transfer this different steps bedgraph format into 1bp file?
... each of these two methods you mentioned runs successfully! awk -F "\t" -v OFS="\t" '$1 ~ /^chr2$/' test.txt awk '/chr2\t/' test.txt ...
written 10 weeks ago by 110651827130
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Comment: C: how can I transfer this different steps bedgraph format into 1bp file?
... For awk -F "\t" -v OFS="\t" '/chr2/ {while ($2 < $3) { print $1,$2,$4; ++$2 }}' test.txt if input test.txt file is chr1 0 2 0 chr1 2 6 1.5 chr2 0 3 0 chr2 3 10 2.1 chr2 11 13 1.5 still no output, just like enter and shows nothing ...
written 10 weeks ago by 110651827130

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