User: pinninti1991reddy

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Genomics.

 

 

Posts by pinninti1991reddy

<prev • 63 results • page 1 of 7 • next >
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Comment: C: Other then picard better way to calculate insertmetrics from a bam file ?
... Yes, I'm getting good distribution only with picard. ...
written 11 weeks ago by pinninti1991reddy30
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Comment: C: Other then picard better way to calculate insertmetrics from a bam file ?
... I tried with bamstats and alfred. ...
written 11 weeks ago by pinninti1991reddy30
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Comment: C: Other then picard better way to calculate insertmetrics from a bam file ?
... using bamstats I'm getting Mapping quality, readlength, editdistances, coverage depth, start positions I'm not able find insert metrics. ...
written 11 weeks ago by pinninti1991reddy30
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Comment: A: Other then picard better way to calculate insertmetrics from a bam file ?
... I able to retrieve the insert-metrics while comparison with other tools like picard its showing less insert-size. Picard shows very good distribution with read pairs information. ...
written 11 weeks ago by pinninti1991reddy30
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Comment: C: Other then picard better way to calculate insertmetrics from a bam file ?
... I'm not able to generate any histogram for insertsizes ? **##CMD##** ./reformat.sh -Xmx10g in1=/data/SRR_1.fastq in2=/data/SRR_2.fastq ihist=/data/SRR.sam out=SRR.hist Set insert size histogram output to /data/SRR.sam Set INTERLEAVED to false Unspecified format for out ...
written 11 weeks ago by pinninti1991reddy30 • updated 11 weeks ago by WouterDeCoster35k
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Other then picard better way to calculate insertmetrics from a bam file ?
... Hi, I tried with picard, I got the distributions is their any tool or AWK command I can directly extract from a sam/bam file ? thanks! ...
genome assembly next-gen alignment written 11 weeks ago by pinninti1991reddy30 • updated 11 weeks ago by trausch1.2k
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Comment: C: Properly paired sequences ?
... ![I totally agree, follow the link https://ibb.co/gTGx99 ...
written 11 weeks ago by pinninti1991reddy30
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Comment: C: Properly paired sequences ?
... Does this setting differ between the genome aligners ? Can i trust the samtools flag-stat statistic for properly paired sequences ...
written 12 weeks ago by pinninti1991reddy30
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Properly paired sequences ?
... Hi Does each aligner has different flag stat ? I'm interested in properly paired sequences how it can be calculated ? (formula) samtools flagstat shows properly paired sequences, calculating properly paired sequences doesn't differ from one to other tool? ...
genome assembly sequence alignment written 12 weeks ago by pinninti1991reddy30 • updated 12 weeks ago by h.mon21k
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Does Last aligner only outputs the mapped reads to a bam file ?
... Hi, I used Last on Illumina genome dataset, after generating bam file its showing only mapped reads. I'm not able to figure it out. Why it is not showing any other statistics ? Aligner - Last Data-set - Human genome Read-length - Illumina 250 bp (PE reads) ##CMD## ./lastal -Q1 -P10 h ...
genome assembly next-gen alignment sequencing written 4 months ago by pinninti1991reddy30 • updated 4 months ago by RamRS19k

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Popular Question 11 weeks ago, created a question with more than 1,000 views. For GATK Unified Genotyper
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