User: manekineko

gravatar for manekineko
manekineko130
Reputation:
130
Status:
Trusted
Location:
Bulgaria
Last seen:
3 months, 1 week ago
Joined:
4 years, 6 months ago
Email:
v*****@plantgene.eu

Posts by manekineko

<prev • 91 results • page 1 of 10 • next >
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qiime open vs closed picking with SILVA?
... I have v3-v5 samples and want to run them to mothur and qiime to see the differences with SILVA. I'm not so familiar with qiime and want to ask if I use SILVA reference is there a difference in using closed or open picking OTU? ...
silva qiime written 3 months ago by manekineko130
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Comment: C: Early Stage Researcher (with PhD option) - Bioinformatics (Marie-Curie Actions H
... Deadline is extended till 10 August. ...
written 16 months ago by manekineko130
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Job: Early Stage Researcher (with PhD option) - Bioinformatics (Marie-Curie Actions H2020)
... We are looking for one enthusiastic PhD student to join our team at the University of Plovdiv, located in Plovdiv, BULGARIA. The research position is part of a Marie Skłodowska-Curie Innovative Training Network titled “ELBA: European Liquid Biopsies Academy - Towards widespread clinical application ...
msc job phd bioinformatics marie curie written 16 months ago by manekineko130
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Comment: C: LoFreq outputing no SNP?
... I have run the BAM in Geneipus and found maybe the reason why in some tools they are disappearing. For example, the one of the SMP are mostly from reverse reads, so if I checked options for strand-bias the SNP probably are trow out. But in my case, I do not know what should be the option as the samp ...
written 23 months ago by manekineko130
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Comment: C: LoFreq outputing no SNP?
... The strange thing is that even with the option "Disable use of base-alignment quality (BAQ)" LoFreq does not report any SNP ...
written 23 months ago by manekineko130
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Comment: C: LoFreq outputing no SNP?
... I'm exploring this in IGV, I have explored the Phred quality of the sample and see that plot shows quality above 35. ...
written 23 months ago by manekineko130
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LoFreq outputing no SNP?
... Hi, I'm trying to use LoFreq for viral data (BAM), when I know there is a low-frequency SNP for example at a particular position 30.000 reads with original nt and 1500 reads containing SNP which makes ~3% frequency of a viral variant, but LoFreq is outputting no SNP found? Can someone with more expe ...
lofreq written 23 months ago by manekineko130 • updated 22 months ago by Biostar ♦♦ 20
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Comment: C: Help downloading pepper genome (I have bad speed connection)
... many thanks, the SOL works bit better :) ...
written 24 months ago by manekineko130
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Help downloading pepper genome (I have bad speed connection)
... Hi, can someone help me get the pepper genome as I have very bad speed (2-3kb) and connection drops from the particular location/server? ftp://public.genomics.org.cn/BGI//pepper/Capsicum.annuum.L_Zunla-1_Release_2.0.fasta.gz If someone can upload it temporarily elsewhere it will be great? Many th ...
capsicum genome pepper written 24 months ago by manekineko130
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16s analysis MySeq PE - analysis of only forward reads?
... Dear all, I have information from a company that 16s V3-V5 metagenomics data from MiSeq PE 2x300 and they analyze only the Forward reads from the sample (no joining the reads). I was wondering which approach can be more accurate - joining the reads and losing some reads or using only the forwards? ...
16s metagenomics written 2.0 years ago by manekineko130 • updated 2.0 years ago by Asaf6.5k

Latest awards to manekineko

Popular Question 15 months ago, created a question with more than 1,000 views. For Check is RNA-seq mapping (tophat) is performed ok (hg38)?
Popular Question 15 months ago, created a question with more than 1,000 views. For multiple paired-end files for one sample?
Popular Question 15 months ago, created a question with more than 1,000 views. For Deseq web-based (with GUI)
Popular Question 15 months ago, created a question with more than 1,000 views. For bowtie options for exact match with reference short sequence
Popular Question 16 months ago, created a question with more than 1,000 views. For Check is RNA-seq mapping (tophat) is performed ok (hg38)?
Popular Question 22 months ago, created a question with more than 1,000 views. For Check is RNA-seq mapping (tophat) is performed ok (hg38)?
Popular Question 22 months ago, created a question with more than 1,000 views. For multiple paired-end files for one sample?
Popular Question 22 months ago, created a question with more than 1,000 views. For Deseq web-based (with GUI)
Popular Question 22 months ago, created a question with more than 1,000 views. For bowtie options for exact match with reference short sequence
Popular Question 22 months ago, created a question with more than 1,000 views. For Removing barcode and adapters?
Popular Question 22 months ago, created a question with more than 1,000 views. For Problems with STAR mapping output
Popular Question 22 months ago, created a question with more than 1,000 views. For htseq-count counts all reads as no_feature
Popular Question 23 months ago, created a question with more than 1,000 views. For multiple paired-end files for one sample?
Popular Question 24 months ago, created a question with more than 1,000 views. For multiple paired-end files for one sample?
Popular Question 2.0 years ago, created a question with more than 1,000 views. For multiple paired-end files for one sample?
Popular Question 2.0 years ago, created a question with more than 1,000 views. For multiple paired-end files for one sample?
Popular Question 2.7 years ago, created a question with more than 1,000 views. For multiple paired-end files for one sample?
Popular Question 2.7 years ago, created a question with more than 1,000 views. For Deseq web-based (with GUI)
Popular Question 2.7 years ago, created a question with more than 1,000 views. For Removing barcode and adapters?
Student 2.7 years ago, asked a question with at least 3 up-votes. For Extending ends of sequences with the help of reads?
Popular Question 2.9 years ago, created a question with more than 1,000 views. For multiple paired-end files for one sample?
Popular Question 3.0 years ago, created a question with more than 1,000 views. For multiple paired-end files for one sample?
Popular Question 3.0 years ago, created a question with more than 1,000 views. For Problems with STAR mapping output
Popular Question 3.4 years ago, created a question with more than 1,000 views. For Mean insert size and Mean inner distance between mate pairs
Popular Question 3.4 years ago, created a question with more than 1,000 views. For Mean insert size and Mean inner distance between mate pairs

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