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pbalign does not produce output

pbalign written 12 days ago by bwczech • 60

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6.1k

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29 follow

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Tutorial: Polish PacBio assembly with latest PacBio tools : an affordable solution for everyone

pbalign tutorial polishing pacbio arrow smrt limk written 17 months ago by Roxane Boyer • 880 • updated 11 weeks ago by cecilio11 • 30

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Extracting reads from Pacbio Sequel BAM by read name

sequel arrow pbalign pacbio bam written 6 months ago by roryC • 0

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340

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Subset BAM file based on selected coverage, PacBio reads

arrow pbalign coverage bam pacbio written 8 months ago by MyrNat • 0

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725

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Help Needed with Pbalign SamFIlter

quiver pbalign pacbio samfilter written 2.2 years ago by anniiee9 • 0 • updated 2.2 years ago by Biostar ♦♦ 20

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samFilter Shows CoreDump

quiver pbalign samfilter written 2.2 years ago by anniiee9 • 0

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711

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pbalign - SortService returned a non-zero exit status

assembly pbalign pacbio written 2.3 years ago by mjp • 10 • updated 2.3 years ago by Biostar ♦♦ 20

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1.0k

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pbalign issue: blasr v5.1 seems to be not integrated with pbalign

alignment pbalign blasr pacbio written 2.4 years ago by Pawel Osipowski • 20

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1.4k

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reference sequence for blasr and pbalign

de novo assembly pbalign blasr pacbio written 3.0 years ago by komwit.s • 0

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Recent Replies

C: How to parallelize a rule in Snakemake ? by WouterDeCoster ♦ 36k
How did you start the pipeline? Did you use the `-j` option of snakemake to allow multiple jobs?
C: MyCC not producing any bins by suran.nambisan • 0
Hello Kevin MyCC.py worked on Ubuntu 16.04 OS and produced output files after clustering. Than...
C: Change NBCI accession numbers to UNIPROT identifiers by Darrill • 0
Thanks a lot it was what I was looking for.
A: Tools for prediction of protein functionality from AA sequence along by Juke-34 • 1.8k
In the functional annotation part that I teach I list few tools/approaches that can be of interes...
A: Difficulty in Host removal by Bowtie2,samtools and bedtools by Antonio R. Franco • 4.0k
It is sort of hard to understand your questions but if you want to filter your library, take a lo...
C: Extract Reads From A Bam File That Fall Within A Given Region by jana • 10
Without -h output.BAM has a header but IGV will not show any reads. In my case was necessary to a...
C: plink --assoc command gives "NA" for all the analysis (F_A,F_U,A2,CHISQ,P,OR val by Kevin Blighe ♦ 37k
Thanks, I will try to take a look later. Out of curiosity, you see your 7th column in the PED fil...
C: Test Whether The Variance In A Group Is Lower Than In Another by A. Domingues • 1.8k
Hi Giovanni, how did you end up solving this? I ran into a very similar [problem](https://www.bio...
C: Removing duplicated mutations from a txt by zx8754 ♦ 6.5k
There error message from dndscv is not about `unique` issue. Do not remove duplicates, dndscv kee...
C: GO annotation file for hsa genes by arup • 850
If a solution involving R will be helpful you can try "[EnrichmentBrowser][1]" package. Tutorial...
A: Difficulty in Host removal by Bowtie2,samtools and bedtools by WouterDeCoster ♦ 36k
> 1. Can anyone suggest a way to check where I am doing wrong.Can we > convert SAM fil...
C: Automating Trimmomatic for total Noobs by WouterDeCoster ♦ 36k
Feel free to come back with your questions - we're happy to help you and point you in the directi...

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