User: popayekid55

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popayekid5530
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1 year, 4 months ago
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Posts by popayekid55

<prev • 31 results • page 1 of 4 • next >
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Comment: C: Need help regarding assembler
... I have already used spades, abyss and idba_ud ...
written 11 days ago by popayekid5530
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Comment: C: Need help regarding assembler!!
... Thank you. I will try with velvet. Any luck on scaffolding and gapcloser . ...
written 11 days ago by popayekid5530
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Comment: C: Need help regarding assembler!!
... Unicycler is a exclusive bacterial assembler. Mine is algal sample. I could try this for a bacterial sample. Thank you for suggestion. Are there any specific for algal ...
written 12 days ago by popayekid5530
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Comment: C: Need help regarding assembler!!
... Data what I have is 150 x 2. Data is for green algae. I thought velvet is for max read length of 100 x 2. I have already started with abyss .. K from kmergenie.. Also trying idba-ud as it is a multi k mer assembler. What other options ?? No reference available.. ...
written 12 days ago by popayekid5530
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Need help regarding assembler
... Hi all, I am very new to genome assembly. I have got 4 data for a genome of size 50M. Data what i have are, illumina short insert lib (200-500), long insert lib (300-600), mate pair (3-5kb) and nanopore (yet to receive). Kindly suggest which assemblers to use?? which data to use what stage (assembl ...
genome next-gen written 13 days ago by popayekid5530 • updated 11 days ago by Ram12k
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Comment: C: RNA seq pipeline
... yes, hisat2 was used. ...
written 21 days ago by popayekid5530
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Comment: C: RNA seq pipeline
... I have seen many post suggesting the usage of Hisat over tophat. It is peculiar to observ odd behaviour. One of human rnaseq, hisat gave me an alignment % of 59 but tophat an overall of 91 for same against grch38.p10.. ...
written 22 days ago by popayekid5530
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Comment: C: FPKM threshold and filter
... you may choose 1 fpkm as cutoff for a trancript/gene to be expressed. anything below that could be filtered out ...
written 6 weeks ago by popayekid5530
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linear genome visualization
... Hi i have installed all the dependency package for [alitv][1] as per the github instruction. i want to create image for custom genomes. i have made yml file as per the tutorials. i am getting following error FATAL - Unable to load alignment module 'AliTV::Alignment::lastz' at /data/ngs/programs/A ...
genome tool synteny written 6 weeks ago by popayekid5530 • updated 5 weeks ago by Philipp Bayer4.8k
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Comment: C: error in ncbi genome submission
... This has been done. Awaiting their response. Any other insight to look at the problem. Is there any way I run through the genome in ncbi pipeline before submission ?? ...
written 7 weeks ago by popayekid5530

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Supporter 15 months ago, voted at least 25 times.

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