User: manubiomed20

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Posts by manubiomed20

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Comment: C: How to find LB from fastq to create a read group?
... the sample is 1000 browser genomes. and I couldn't find. ...
written 14 hours ago by manubiomed200
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How to find LB from fastq to create a read group?
... How to find LB from fastq to create a read group? I need to add the information about LB in the reads groups to mount using bwa, but I don't know how to do it. Can someone help me? ...
assembly sequencing written 1 day ago by manubiomed200 • updated 1 day ago by swbarnes26.2k
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Comment: C: how to install neuraldesigner software on ubuntun?
... already got it. Thanks ...
written 7 days ago by manubiomed200
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Comment: A: I can't see my bam file on igv
... The memory of my machine is 19.6. Is there a chance the problem is with my reading group? I did not add this information: LB = DNA preparation library identifier ...
written 8 days ago by manubiomed200
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how to install neuraldesigner software on ubuntun?
... Does anyone know how to install neuraldesigner software and can you help me? sudo apt install neuraldesigner_2.9.5_amd64.deb Reading package lists ... Ready Building dependency tree Reading status info ... Ready E: Unable to find neuraldesigner_2.9.5_amd64.deb package E: C ...
software error written 8 days ago by manubiomed200 • updated 8 days ago by genomax70k
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Comment: A: I can't see my bam file on igv
... I used fastqc just to evaluate the quality of bases. I believe that the problem happened in the assembly, I could not find the library of my fastq because I took the browser 1000 genomes and only later realized that this could affect the assembly. how do i find out my fastq library? ...
written 8 days ago by manubiomed200
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Comment: C: I can't see my bam file on igv
... I figured that out, but check the fastq no fastqc program the r1 and r2 are with the same sequence number ...
written 12 days ago by manubiomed200
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I can't see my bam file on igv
... I assembled an exome using the following command: bwa mem -t 12 -B 4 -O 6 -E 1 -M -R '@RG\tID:SRR1517898\tSM:HG00096\tPL:ILLUMINA' /home/ims.santos06/reference/hg38.fa /home/ims.santos06/fastq/SRR1517898_1.fastq.gz /home/ims.santos06/fastq/SRR1517898_2.fastq.gz ...
genome assembly alignment written 12 days ago by manubiomed200
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How to download fastq from a browser 1000 genomes human chromosome?
... I am learning how to assemble genomes using bwa. I would like to assemble only one chromosome. In the browser of 1000 genomes I found only the bam of chromosome 11 and 22. I would like to get the fastq, is this possible? do i need to convert bam to fastq? how do I do? ...
assembly sequence written 21 days ago by manubiomed200 • updated 7 days ago by Biostar ♦♦ 20
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Comment: A: Error : Could not build fai index
... I got these files: GRCh38.chr.11.fa.gz.ann GRCh38.chr.11.fa.gz.sa GRCh38.chr.11.fa.gz GRCh38.chr.11.fa.gz.bwt GRCh38.chr.20.fa.gz GRCh38.chr.11.fa.gz.amb GRCh38.chr.11.fa.gz.pac ...
written 21 days ago by manubiomed200

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