User: baurumon

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baurumon10
Reputation:
10
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New User
Location:
Norway
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1 month, 1 week ago
Joined:
1 year, 5 months ago
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b*******@gmail.com

Posts by baurumon

<prev • 32 results • page 1 of 4 • next >
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(Closed) Tab delemited .CSV in R
... Hello, I am trying to write .csv table in R but not getting it as tab-delimited. Could you please help me out of this? Thanks in advance The command I used - write.table(topTable_F_vs_Brakishwater,file="topTable_F_vs_Brakishwater.csv",quote=T,col.names=NA, sep="\t") write.table(topTable_F_vs_Bra ...
R written 5 weeks ago by baurumon10
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Comment: C: Gtf/gff file in featurecounts
... Chromosomes name of these two files are different. [enter link description here][1] [enter link description here][2] [1]: https://img.techpowerup.org/200512/screenshot-62915.png [2]: https://img.techpowerup.org/200512/screenshot-63.png ...
written 8 weeks ago by baurumon10
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Comment: C: Gtf/gff file in featurecounts
... Hi I have used this code featureCounts -T 5 -t exon -g gene_id -O -a reference_trans/corrected.gtf -b -o Counts_SRR1390636.txt SRR1390636_sorted.bam Output description link below [enter link description here][1] ![enter image description here][1] [][2] Thanks [1]: https://img.techpowerup. ...
written 8 weeks ago by baurumon10
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Gtf/gff file in featurecounts
... Hello, I am working on stickleback RNAseq data. I want to count reads for each gene. But i am not getting Successfully assigned reads in featurecount. The .gtf file i am using from ftp://ftp.ensembl.org/pub/release-100/gtf/gasterosteus_aculeatus/ Can anyone let me know if the .gtf file is workable ...
rna-seq written 8 weeks ago by baurumon10
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Comment: A: Gblock multiple alignment
... Thank you @genomax ...
written 6 months ago by baurumon10
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Comment: C: Gblock multiple alignment
... i tried it but did not work. I converted my .fasta file to .pir with EMBL sequence conversion tool. https://www.ebi.ac.uk/Tools/sfc/ . Sequences look like as below- >D1;3amexicanus , 119 bases AGAAGCCAGC TCTGAAGAAA GTGCGCATGT CTGCTGACGC TATGCTGCAA GCTCTGCTCG GCTCCAAACA CAAGGT ...
written 6 months ago by baurumon10 • updated 6 months ago by genomax85k
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Gblock multiple alignment
... HI, I am using multiple alignment of non coding sequence to select conserved block. All the sequence has different length and when i run command : Gblocks result.pir -t=d -e=-gb1 -b4=5 -d=y, it is not accepting my data and showing--- Sequences with different number of positions. Execution term ...
alignment written 6 months ago by baurumon10
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Comment: C: Splitting a fasta into desired nucleotide length
... it worked, thank you !! ...
written 8 months ago by baurumon10
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Splitting a fasta into desired nucleotide length
... Hello, I want to split this fasta to my desired nucleotide length. In my case, i need to split every 2500bp length. Let me clear a bit more, Suppose, A fasta file has 5934bp length, i want split it a way that give 2 fasta having 2500bp and rest 934 in another fasta file. I have tried pyfasta ...
sequence written 8 months ago by baurumon10
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Parsing RNAhybrid output
... Hi, I have used RNAhybride to predict miRna to target desired sequence. Can anyone help me in the way to parse output by column as below. target: NC_031978.2:30702661-30704116 | miRNA : oni-miR-10613 | mfe: -26.5 kcal/mol | p-value: 0.095468 ![enter image description here][1] [1]: https://c ...
rna-seq written 9 months ago by baurumon10 • updated 9 months ago by JC10k

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Supporter 8 months ago, voted at least 25 times.

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