User: Balatheskulter

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Posts by Balatheskulter

<prev • 18 results • page 1 of 2 • next >
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Comment: C: How to annotate edgeR results?
... geneID logFC logCPM PValue product AG1IA_00007 0.457824277 6.711014893 8.44E-53 vesicular-fusion protein SEC18 AG1IA_00008 1.514709777 4.376560603 3.28E-111 hypothetical protein AG1IA_00008 AG1IA_00009 -0.409 ...
written 8 weeks ago by Balatheskulter0
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How to annotate edgeR results?
... I have got log2fold change by using edgeR. geneID logFC logCPM PValue AG1IA_00007 0.457824277 6.711014893 8.44E-53 AG1IA_00008 1.514709777 4.376560603 3.28E-111 AG1IA_00009 -0.409884055 5.357685435 1.39E-19 AG1IA_00010 0.36806713 4.554970223 5.85E ...
R next-gen rna-seq annotation written 8 weeks ago by Balatheskulter0 • updated 8 weeks ago by c1170dfef20
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deseq2 replicates error
... > setwd("C:/Users/SKULTER/Desktop/New folder/") > directory <- 'C:/Users/SKULTER/Desktop/New folder/' > samplefiles <- grep("SRR",list.files(directory),value = TRUE) > condition <- c('SRR5500529.txt','SRR5500530.txt') > sampletable < ...
R rna-seq written 9 weeks ago by Balatheskulter0 • updated 9 weeks ago by ATpoint34k
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Comment: C: Htseq-Count Not Working With Bam From Tophat
... you should have been read my queries fully, the second time I used the star to map against a reference genome, and still, I didn't get the output ...
written 11 weeks ago by Balatheskulter0
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Comment: C: Htseq-Count Not Working With Bam From Tophat
... kindly help me out bro https://www.biostars.org/p/425770/#425866 ...
written 11 weeks ago by Balatheskulter0
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Comment: C: htseq count error
... boaty, kindly look at the above stanza. ...
written 11 weeks ago by Balatheskulter0
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Comment: C: htseq count error
... Now I have used STAR to map the reads against the reference genome. The output is Aligned.sortedbycoord.out.bam and Alignedout.bam $ samtools view Aligned.sortedByCoord.out.bam | head SRR5500529.2896506 419 KB317696.1 1658 3 7M230616N119M = 232299 230767 GGC ...
written 11 weeks ago by Balatheskulter0 • updated 11 weeks ago by ATpoint34k
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Comment: C: htseq gene atrribute error
... please see this https://www.biostars.org/p/425770/ ...
written 11 weeks ago by Balatheskulter0
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htseq count error
... I used tophat to map paired-end reads against the reference genome and generated Acceptedhits.bam file $ htseq-count --idattr locus_tag -o samout 119acceptedhits.bam Rsolani.gff AG1IA_10588 0 AG1IA_10589 0 AG1IA_10590 0 AG1IA_10591 0 ...
software error next-gen rna-seq written 11 weeks ago by Balatheskulter0 • updated 11 weeks ago by boaty110
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htseq gene atrribute error
... $ htseq-count -q --additional-attr 534accepted_hits.bam 535accepted_hits.bam Rsolani.gff Error occured when processing GFF file (line 10 of file Rsolani.gff): Feature exon-AG1IA_00001-2 does not contain a 'gene_id' attribute [Exception type: ValueError, raised in count.py:79] what should I do no ...
software error next-gen rna-seq written 3 months ago by Balatheskulter0 • updated 3 months ago by Strand NGS40

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