User: merajazizmeraj

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United States
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4 years, 11 months ago
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5 years, 10 months ago
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Posts by merajazizmeraj

<prev • 11 results • page 1 of 2 • next >
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Comment: C: How will i map exons (FASTA Format) onto human genome to get the genomic coordin
... Thanks... i have gotten as far as generating the .bed file from the psl. But i dont see how the bedmap or bedops can help annotate my exon sequences with exon number and start and end of the exon on the original gene (STAG2) and whether its a CDS and if it is a CDS what are the coordinates of that C ...
written 5.1 years ago by merajazizmeraj20
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Comment: C: How will i map exons (FASTA Format) onto human genome to get the genomic coordin
... @Alex Reynolds ..thanks. Since i have 3000 sequences can you please elaborate on the commandline syntax to connect to UCSC BLAT server and execute the BLAT part to generate the psl file. ...
written 5.1 years ago by merajazizmeraj20
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How will i map exons (FASTA Format) onto human genome to get the genomic coordinates?
... Hi, I am trying to make multiple exon sanger sequenced gene submission to NCBI and would like to get the exact genomic coordinates of my exons sequence and the CDS. Is there a tool out there that does that? I have thousands of samples, only a few rows are shown below. Thanks.   >SeqX [organism= ...
genome sanger exons map sequencing written 5.1 years ago by merajazizmeraj20 • updated 5.1 years ago by Nicolas Rosewick7.6k
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Comment: C: Trim sequences in FASTA file from sanger sequencing
... wont this split the string if there are a few N's in between the sequences. I would like to trim the ends as much as possible and tolerate some N's in the middle. Thanks ...
written 5.1 years ago by merajazizmeraj20
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Comment: C: Trim sequences in FASTA file from sanger sequencing
... yes...that is correct. ...
written 5.1 years ago by merajazizmeraj20
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Comment: C: Trim sequences in FASTA file from sanger sequencing
... Thanks. I did look at this and am using galaxy but it is not trimming the beginning and ends. It just removes sequences that have lots of NNNNNNN's in them. ...
written 5.1 years ago by merajazizmeraj20
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Trim sequences in FASTA file from sanger sequencing
... Is there a tool out there that trims FASTA sequences at the beginning and ends. By trimming i mean take the input sequences and generate the ouputs. I have more than 3000 sequences. Thanks. INPUT: >Seq1 NNNNNNNNNNTTGNNNNGGATNTCCTTTCCGAATATTTTTGGTGCATTTGTAATAAATGTCATTTNTCTCCTTTTTAAAGGAATTGTCTT ...
sanger sequencing trim nnnn written 5.1 years ago by merajazizmeraj20
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Comment: C: What Software Can Be Used To Make A Plot Of Abberations As Shown?
... yes you are correct...i will look into the documentation for further details...thanks..! ...
written 5.5 years ago by merajazizmeraj20
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What Software Can Be Used To Make A Plot Of Abberations As Shown?
... Does anyone know what software was used to make plots like the following: ...
copynumber written 5.5 years ago by merajazizmeraj20 • updated 5.5 years ago by B. Arman Aksoy1.2k
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Comment: C: Is There An Easy Way Of Getting Gene Symbols From Genomic Coordinates?
... how can i get the gene symbols for the regions. Do you know the syntax for that. ...
written 5.8 years ago by merajazizmeraj20

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