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Could Not Calculate Ungapped Karlin Altschul

I think the option to turn this off is -F F. ¬† ADD REPLY • link written 12 months ago by Jean-Karim Heriche ♦ 7.2k Please log in to add an RSeQC (infer_experiment) problem HI everyone I am using RSeQC to determine strandness.¬† When running the command infer_experiment... Extracting Fasta Alignments From Parsed Blastxml File Hello, I have cobbled together a small script that parses a BLASTxml file. What is the problem? 0 13 months ago by john • 0 European Union john • 0 wrote: Hello people I'm trying to run blast (blast-2.2.26) on a fasta file. have a peek at this web-site

Tango Icons © Tango Desktop Project. Obtaining A Maximum Number Of Blast Hits: Problem... Below - the command ... converting a fasta database to blastp database hello im runnnig a wwwblast software on my server i do have a fasta database and i would like to ... https://www.biostars.org/p/167725/

Unable To Install 'Pasilla' On R I am trying to install or load on R. How To Get Top Hits? Terms Privacy Security Status Help You can't perform that action at this time.

snayfach closed this Sep 8, 2015 Sign up for free to join this conversation on GitHub. Anybody Managed To Make Inparanoid Work? Because the output file is empty. ¬† ADD REPLY • link modified 13 months ago • written 13 months ago by john • 0 It can also happen when there are Have anyone been experienced Socrates ?

For example this test sequence: >test NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN Produced this error: hs-blastn: sources/commandline_options/parameters.cpp:182: BlastInitialWordParameters::BlastInitialWordParameters(const BlastInitialWordOptions*, const BlastHitSavingParameters*, const BlastScoreBlk*, QueryInfo*, Int8): Assertions_BlastKarlinBlkIsValid(kbp)' failed. ADD REPLY • link written 2.6 years ago by Ram ♦ 10k 3 2.6 years ago by Prakki Rama • 1.9k Singapore Prakki Rama • 1.9k wrote: The option¬†"-F"¬† for masking empyrean Bioinformatics 3 03-10-2011 08:13 PM Thread Tools 01-12-2015, 03:02 PM #1 morning latte Member Location: MI Join Date: Jun 2013 Posts: 86 blastall error Hello experts, I ADD REPLY • link modified 13 months ago • written 13 months ago by genomax2 ♦ 19k 0 13 months ago by Jean-Karim Heriche ♦ 7.2k EMBL Heidelberg, Germany Jean-Karim Heriche

Thanks for your help in advance. ¬† sequencing blast alignment genome • 603 views ADD COMMENT • link • Not following Follow via messages Follow via email Do not follow modified I am interested in using Mothur for metagenomics analysis. Check the database to make sure it only has valid amino-acid characters. Please verify the query sequence(s) and/or filtering options" Could ¬†anybody please help me to resolve the warning.

Help With Bioperl Remote Blast Script (Bio::Tools::Run::Remoteblast) Hi, I would like to run a blast search for a fasta file containing many (100+) seqences. navigate to this website I would like to perform a tblastn w... Sign in to comment Contact GitHub API Training Shop Blog About © 2016 GitHub, Inc. BLAST, setting maximum number of hits Hello, I am trying to set the number of maximum hits to 5, so that the procedure can finish soon...

Warning in Genemark and maker Thanks everyone After my training with Genemark, there are two kinds of warning in the "log" out... Check This Out There is a problem with this specific query. i am getting the following error. Duplicated terminal-version BLAST results Hi there!

For this I created my own database using the command: `makeb... Ubuntu Logo, Ubuntu and Canonical © Canonical Ltd. Hello people I'm trying to run blast (blast-2.2.26) on a fasta file. Source myposts blastp blast fasta • 1.0k views ADD COMMENT • link • Not following Follow via messages Follow via email Do not follow modified 13 months ago • written 13 months

HS-BLASTN should report a warning, and these sequences should be skipped. about • faq • rss Community Log In Sign Up Add New Post Question: getting error in runing tblastn 0 2.6 years ago by inayat45shaikh • 30 India inayat45shaikh • 30 I'm running standalone blast locally.

You are not using the latest blast so if possible upgrade.

Please verify the query sequence(s) and/or filtering options. The following warning is now reported for each sequence that consists of all Ns: [ScoreBlkKbpUngappedCalc] Warning: Could not calculate ungapped Karlin-Altschul parameters due to an invalid query sequence. While rare, these sequences can occur in large short-read datasets. Trinity : average transcript size check + quality assessment Hello all   I have performed trinity assembly , now i want assess the quality of the the assemb...

tblastx in blast+ gives an error regareding a DB alias but blastall works fine I'm trying to run `tblastx` locally. Psiblast Warning: Composition-Based Score Adjustment Warning: lcl|Query_1 1DCH:A|PDBID|CHAIN|SEQUENCE: Warning: Composition-based score adjustment ... You signed in with another tab or window. http://awendigital.com/could-not/could-not-calculate-ungapped-karlin-altschul-parameters.html Running A Standalone Batch Blast With Fasta File Using Perl, Can'T Get Results For All Sequences.

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