User: caelyn5201314

gravatar for caelyn5201314
Reputation:
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Status:
New User
Location:
China/Beijing/Chinese Academic Of Science
Last seen:
3 years, 3 months ago
Joined:
4 years ago
Email:
c************@gmail.com

Posts by caelyn5201314

<prev • 15 results • page 1 of 2 • next >
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Comment: C: Help in cufflinks -- all the FPKM values are 0
... yes, this is my annotation file  Chr1    irgsp1_rep    exon    2983    3268    .    +    .    gene_id "XLOC_000001"; transcript_id "TCONS_00000001"; exon_number "1"; gene_name "Os01g0100100"; oId "Os01t0100100-01"; tss_id "TSS1"; Chr1    irgsp1_rep    exon    3354    3616    .    +    .    gene_id ...
written 3.9 years ago by caelyn520131410
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Comment: C: Help in cufflinks -- all the FPKM values are 0
... The annotation file is correct...if i use -g then nothing wrong  ...
written 3.9 years ago by caelyn520131410
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Help in cufflinks -- all the FPKM values are 0
... Hi,all!  I use the cufflinks with the parameter -G and found that all the FPKM values are 0. this is my command  /share_bio/nas2/zhangz_group/xial/software/cufflinks-2.2.1.Linux_x86_64/cufflinks -o /share_bio/nas2/zhangz_group/xial/test/$Filename2[$i]/$realFiles[$j]/cufflinks_result -p 8 -G /shar ...
next-gen rna-seq written 3.9 years ago by caelyn520131410
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Comment: C: Help in NGS QC Toolkit
... ok...thank you !!!:) ...
written 4.0 years ago by caelyn520131410
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Comment: C: Help in NGS QC Toolkit
... I print scalar(@Filename2) and print @filename ,it same ! ...
written 4.0 years ago by caelyn520131410
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Comment: C: Help in NGS QC Toolkit
... @filename2 is the length of the array ...
written 4.0 years ago by caelyn520131410
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Answer: A: Help in NGS QC Toolkit
... thank you RamRS and Geek_y !!!!! It worked !!! thanks a lot !!!! ...
written 4.0 years ago by caelyn520131410
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Comment: C: Help in NGS QC Toolkit
... oh,i have a lot files, like :  DRP000568 SRP222222 SRP999999 and "next unless" is just want to test if one file works out  ...
written 4.0 years ago by caelyn520131410
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Comment: C: Help in NGS QC Toolkit
... #!/usr/bin/perl use strict; use warnings; opendir(FILE,"/share_bio/nas2/zhangz_group/xial/test") or die "Can't open dir "; my @Filename=readdir(FILE); closedir(FILE); my @Filename2 = grep(/^[A-Z]/,@Filename); for (my $i=0;$i<@Filename2;$i++) {   next unless ($Filename2[$i] eq "DRP000568"); ...
written 4.0 years ago by caelyn520131410 • updated 4.0 years ago by RamRS19k
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Comment: C: Help in NGS QC Toolkit
... system "perl /leofs/zhangz_group/xial/NGSQCToolkit_v2.3.3/QC/IlluQC.pl -pe /leofs/zhangz_group/xial/data-fastq/Pair-end/$Filename2[$i]/$file1 /leofs/zhangz_group/xial/data-fastq/Pair-end/$Filename2[$i]/$file2 N A –t 2 –l 70 –s 20";  ...
written 4.0 years ago by caelyn520131410

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