User: nabiyogesh

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nabiyogesh50
Reputation:
50
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Trusted
Location:
South Korea
Last seen:
4 hours ago
Joined:
6 months ago
Email:
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Posts by nabiyogesh

<prev • 185 results • page 1 of 19 • next >
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Comment: C: Multiple sam to bam followed by raw read count
... I used this scripts and I able to extract mapped reads from sam file to in the bam format. ls *.sam | xargs -n 1 -I {} sh -c 'samtools view -F 4 -b {} > {}.bam' Now can you please suggest how to sort and index all these bam files? ...
written 3 days ago by nabiyogesh50
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Comment: C: Multiple sam to bam followed by raw read count
... I removed flag -S from command as you have suggested. ...
written 3 days ago by nabiyogesh50
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Comment: C: Circos histogram from SNP.VCf file
... Thanks a lot for this valuable help. I will try it and inform you if works for me. ...
written 3 days ago by nabiyogesh50
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Multiple sam to bam followed by raw read count
... I have multiple sam file like this: sam file location: /data/SNU_work/Analysis/mapped/mapped samtool location: /home/yog/software/samtools-1.3.1/samtools 218_9W_Pa2.sam 218_9W_Pa1.sam 216_7W_Co1.sam 216_7W_Ca2.sam 216_7W_Ca1.sam I converting them one by one using below commnad: /home/ ...
rna-seq written 3 days ago by nabiyogesh50
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Comment: A: Circos histogram from SNP.VCf file
... Thanks a lot for this valuable help. I will try it and inform you if works for me. ...
written 3 days ago by nabiyogesh50
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Comment: C: Circos histogram from SNP.VCf file
... I have a two contrasting genotype transcriptome. I mapped these pair end reads to same reference genome. I want to see SNP histogram along the all chromosomes for both genotypes. I think it should be varient per Mb. ...
written 4 days ago by nabiyogesh50
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7 follow
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Circos histogram from SNP.VCf file
... I have called SNP in transcriptome data using GATK pipeline. I installed circos on linux platform. I understand from circos tutorial that it needs conf. file with plot setting. In that I need to mention path to karyotype file which contain information about chromosomes. But still I am not able to ...
snp written 4 days ago by nabiyogesh50
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Comment: C: How to extract trinity gene id
... Thanks, it works for me. ...
written 6 days ago by nabiyogesh50
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Comment: C: How to extract trinity gene id
... I need to extract all trinity gene id whether it is found hit or not, after using above command it is showing only trinity gene id which found the hit: I want to extract all gene id on the basis of word TRINITY presence, wherever it find TRINITY, should grep that and gives that gene id in output fil ...
written 6 days ago by nabiyogesh50
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Comment: C: How to extract trinity gene id
... I tried cut linux command and also tried with excel but not succeed. cut -f2 trinity_216_70574__NR__database > trinity_blasted.id ...
written 6 days ago by nabiyogesh50

Latest awards to nabiyogesh

Centurion 10 weeks ago, created 100 posts.
Supporter 4 months ago, voted at least 25 times.
Rising Star 4 months ago, created 50 posts within first three months of joining.

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