User: worarado.kan

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worarado.kan10
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Posts by worarado.kan

<prev • 22 results • page 1 of 3 • next >
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Comment: C: how to change gtf to fasta file of cufflink, gffread
... Yes I mean head of fasta file because next step I have to joint fasta file with genes.exp.cuffdiff file, so I need the same ID Could you help how to use command? sorry Im new for this analysis Thank you so much Kanjana ...
written 12 days ago by worarado.kan10
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Comment: C: Cufflinks gffread utility
... In gffread, if I need only TCONS_00033653 and gene_id "XLOC_028018 ID. what is command I should use? Actually, I used gffread -w ECvsEL_transcript.fasta -g v.corymbosum_GDV_reftransV1.fasta EC_vs_EL.gtf But I get only TCONS_00033653 ID Thank you so much kanjana ...
written 13 days ago by worarado.kan10
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how to change gtf to fasta file of cufflink, gffread
... Dear all, I would like to change gtf file to fasta file. In gffread, if I need only TCONS_00033653 and gene_id "XLOC_028018 ID. what is command I should use? My gtf file is v.corymbosum_GDV_reftransV1_0039461 Cufflinks exon 1171 1309 .- . gene_id "XLOC_028018"; transcript_id "TCONS_00033 ...
software error alignment rna-seq sequencing written 13 days ago by worarado.kan10 • updated 11 days ago by kristoffer.vittingseerup2.4k
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using gffread for change GFF file to GTF file
... Hello everyone, I try to change GFF file to GTF for analysing in HISAT. Why when I run following this command; gffread Blueberry.gff -T -o Blueberry.gtf Showed this error GFF Error: overlapping duplicate gene feature (ID=CUFF.71) GFF Error: overlapping duplicate gene feature (ID=CUFF.168) GFF ...
next-gen rna-seq sequencing written 16 months ago by worarado.kan10
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How to change scaffold.fasta file or scaffold.bed file to GTF file?
... Hello everyone, I have a problem about changing scaffold.fasta file or scaffold.bed file to GTF file. I would like to analyse using HISAT,stringtie and ballgown that required GTF file of reference. I try to do follow these website but still not complete. https://www.biostars.org/p/64346/ http://o ...
assembly next-gen rna-seq written 17 months ago by worarado.kan10
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Problem with blast2go input file
... Hello everyone, I'm new to using blast2go and I have a basic question. I would like to load blast result that showed in **_fmt6.tx** file and run GO mapping. But I can not download the file. What should I do or if you have some guidance, please let me know?. Best regards, Kanjana ...
assembly next-gen rna-seq alignment written 17 months ago by worarado.kan10 • updated 16 months ago by Biostar ♦♦ 20
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Comment: C: How to convert original BED file to a GTF ?
... I try to use this web https://github.com/pfurio/bed2gtf Because another web I don't understand well. Could you explain again? Thank you ...
written 17 months ago by worarado.kan10
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Comment: C: How to convert original BED file to a GTF ?
... Hi, I try to follow that website for change Bed file to gtf but can not. Do you have another kind suggestion? Best, ...
written 17 months ago by worarado.kan10
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Comment: C: Swissprot db annotate error
... Now I can run, Thank you so much ...
written 17 months ago by worarado.kan10
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Comment: C: Swissprot db annotate
... Thank you for your information ...
written 17 months ago by worarado.kan10

Latest awards to worarado.kan

Popular Question 16 months ago, created a question with more than 1,000 views. For using gffread for change GFF file to GTF file
Popular Question 16 months ago, created a question with more than 1,000 views. For How to convert original BED file to a GTF ?
Popular Question 16 months ago, created a question with more than 1,000 views. For How to build index of reference scaffold.fasta using bowtie?

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