User: meishengxiao86

Reputation:
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New User
Location:
Germany
Last seen:
4 years, 4 months ago
Joined:
4 years, 7 months ago
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m*************@gmail.com

Posts by meishengxiao86

<prev • 6 results • page 1 of 1 • next >
15
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5
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loop over lines group by group and do something separately in text file
... Hello, everyone! I have a file containing huge number of lines and each line have several fields. I sorted the lines based on the first field. Lines with the same first field were grouped together and numbers in each group is flexible. I would like to loop over the whole file and do something on eac ...
rna-seq written 4.5 years ago by meishengxiao8630 • updated 4.5 years ago by Nathan S. Watson-Haigh190
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progressive clustering with python
... Hello, everyone! I have a series of number and some of them could have replicates. I would like firstly to cluster together the numbers located within 24 from one another. If a cluster size is =<24, the number with the greatest number of duplicates will be used as the representative number in the ...
rna-seq written 4.5 years ago by meishengxiao8630
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Comment: C: comparing the results of two mapping methods and extract part of them
... For tophat, I only keep the unique alignment in the sam file and each read will have one specific origin, however, for alignments in bowite output file, there will be multiple alignments for each read. What I want to do is to pick out the one specific alignment from multiple hits of each read by com ...
written 4.5 years ago by meishengxiao8630
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comparing the results of two mapping methods and extract part of them
... Hi, I mapped my RNAseq data with two different methods, tophat and bowtie2. For the result of tophat I used the full length  reads(150nt) for mapping and only the unique alignment was selected. For the result of bowtie2, I only used  the first 50nt in local model when mapping and permit multiple ali ...
rna-seq written 4.5 years ago by meishengxiao8630
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Comment: C: trim leading T or A from fastq file
... Hi Pierre, Thanks very much for your reply! I have tried the code you supplied, however it seems not workable. The following is the content of the error.  awk: {if(NR%4==2) {L=0;if(match(-bash,/^[Tt]+/)>0) { L=RLENGTH;} -bash=substr(-bash,L+1);} else if(NR%4==0) {-bash=substr(-bash,L+1);} print; ...
written 4.6 years ago by meishengxiao8630
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trim leading T or A from fastq file
... Hi, I am working with RNAseq data. I want to trim the leading T or A from my fastq file then perform mapping. Does anyone know how to do that? Thanks a lot! Meisheng ...
rna-seq written 4.6 years ago by meishengxiao8630 • updated 4.6 years ago by Pierre Lindenbaum120k

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