User: Ming Lu

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Ming Lu0
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Posts by Ming Lu

<prev • 19 results • page 1 of 2 • next >
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Answer: A: enhancer RNA counting from RNASeq data
... "most lincRNAs were polyadenylated and were dynamically regulated during T cell differentiation" Expression and regulation of intergenic long noncoding RNAs during T cell development and differentiation (Guangqi HU, 2013) ...
written 5 days ago by Ming Lu0
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Comment: A: Gene expression units explained: RPM, RPKM, FPKM and TPM
... what about rpm/bp?reads per million mapped reads per base pair (rpm/bp) with background subtraction ...
written 24 days ago by Ming Lu0
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Answer: A: how to grep word with hyphen/dash of A file in one column of B file
... find a good code can get all matched lines:654! without need of sorting first. ` awk -F '\t' 'NR==FNR{a[$1]=$1;next}; ($1==a[$1]){print $0}' a.bed b.bed > new.bed in b.bed 's order with b.bed's columns awk -F '\t' 'NR==FNR{a[$1]=$0;next}; ($1 in a){print a[$1]}' a ...
written 6 weeks ago by Ming Lu0
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how to create a clustered heatmap for ER, then aligned other PU.1, FOXA1 heatmap with the same order to the ER cluster?
... how to create a clustered heatmap for VDR, then aligned PU.1, FOXA1 heatmap with the same order to VDR cluster? JUST LIKE FIG A ![enter image description here][1] [1]: https://media.nature.com/m685/nature-assets/ng/journal/v48/n8/images/ng.3605-F1.jpg ...
chip-seq written 6 weeks ago by Ming Lu0
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Answer: A: how to grep word with hyphen/dash of A file in one column of B file
... Firstly, I change all "-" to "_", and only use the column I use for grep, but make no difference. All 654 rows of moVDR1220 should be in 36551 rows of trytry.txt as moVDR1220.txt is a result of #first transform enhancer.txt to enhancer.bed (move name column such as chr1-10 from 1 to 4 ) ...
written 9 weeks ago by Ming Lu0
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Comment: C: how to grep word with hyphen/dash of A file in one column of B file
... yes sorte have sorted, comm is right, grep cannot get right number ...
written 9 weeks ago by Ming Lu0
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Comment: C: grep -w -f cannot find "chr1-10" in one file by using another file
... just writing mistake not the focus. ...
written 9 weeks ago by Ming Lu0
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Comment: C: grep -w -f cannot find "chr1-10" in one file by using another file
... not equal, A.bed has 645 rows, B.bed has 33024 rows. But all A.bed are from one column of B.bed. I think maybe "-"dash break the -w limited string? Tried your code, still cannot find the rest same gene with grep -Fwf ...
written 9 weeks ago by Ming Lu0
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how to grep word with hyphen/dash of A file in one column of B file
... Hi, I have a A.bed file only with the gene name of these chr1-1 chr1-10 chr1-102 chr1-106 chr1-11 chr1-2 chr1-3 and I know they also in one column of B.bed . chr1 startpos endpos chr1-1 chr1 startpos endpos chr1-10 chr1 startpos endpos c ...
chip-seq written 9 weeks ago by Ming Lu0
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Comment: C: samtools view -bT hg19.fa OR -bhs -q 30 -F1548 A.sam > A.bam, which one is bett
... Thanks a lot but still wonder when head available, why not samtools view -bhs -q30 -F1548 A.sam > A.bam ...
written 10 weeks ago by Ming Lu0

Latest awards to Ming Lu

Supporter 5 days ago, voted at least 25 times.
Scholar 6 weeks ago, created an answer that has been accepted. For A: how to grep word with hyphen/dash of A file in one column of B file

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