User: timjoncooper

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timjoncooper180
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Posts by timjoncooper

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Extracting intergenic region coordinates and type
... I have edited the OP to hopefully include more useful information.  ...
written 3.5 years ago by timjoncooper180
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Comment: C: Blast - Formatting Output
... Thank you! Sorted it out now. ...
written 5.0 years ago by timjoncooper180
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Blast - Formatting Output
... Hi, I've been using the blastn (version 2.2.28+) standalone tool against a custom formatted genome via: blastn -db BLASTDB -word_size 7 -query input.fa -out filename -perc_identity 100 -outfmt 6 -max_target_seqs 2 To discard non-perfect hits and show only the 2 top hits. The output file has a g ...
format blast output written 5.0 years ago by timjoncooper180 • updated 12 months ago by sridhar.rg0
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Data Smoothing - Matlab
... Hi, I'm attempting to smooth genome-wide data that is currently in a bedGraph format in an attempt to remove problems visualising the data which is skewed toward single 1bp peaks with high signal amongst regions of low signal - such as the one highlighted below: chrI 86 87 1 chrI 108 ...
data matlab written 5.1 years ago by timjoncooper180
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Comment: C: Viewing Chip-Chip Data Within A Genome Browser
... This is the BedGraph file that I am using - it returns numerous errors. https://www.dropbox.com/s/vzir2qpi2xolosu/chr1rec114.bedgraph ...
written 5.1 years ago by timjoncooper180
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Comment: C: Viewing Chip-Chip Data Within A Genome Browser
... I've attempted to create a BedGraph file however when uploading it to the UCSC Genome Browser it returns the error: Unrecognized format type=bedGraph - what is causing this? ...
written 5.1 years ago by timjoncooper180
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Viewing Chip-Chip Data Within A Genome Browser
... Hi! We've currently got some processed ChIP-chip data within an .xlsx file - is there anyway this data can be converted for viewing on a genome browser? It currently contains the specific chromosomal loci the signal was probed and the signal strength for each protein investigated. Thanks TC ...
genome data browser written 5.1 years ago by timjoncooper180 • updated 5.1 years ago by Ian5.3k
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Comment: C: Tallying Multiple Hits From Blast Results
... I do know the sequences in-theory however I have over 9500 possible combinations of 2 sequences being together. ...
written 5.1 years ago by timjoncooper180

Latest awards to timjoncooper

Appreciated 3.5 years ago, created a post with more than 5 votes. For Blast - Formatting Output
Prophet 3.5 years ago, created a post with more than 20 followers. For Blast - Formatting Output
Good Question 3.5 years ago, asked a question that was upvoted at least 5 times. For Blast - Formatting Output
Popular Question 3.5 years ago, created a question with more than 1,000 views. For Viewing Chip-Chip Data Within A Genome Browser
Popular Question 3.5 years ago, created a question with more than 1,000 views. For Data Smoothing - Matlab
Student 3.5 years ago, asked a question with at least 3 up-votes. For Blast - Formatting Output
Great Question 5.0 years ago, created a question with more than 5,000 views. For Blast - Formatting Output
Epic Question 5.0 years ago, created a question with more than 10,000 views. For Blast - Formatting Output
Popular Question 5.0 years ago, created a question with more than 1,000 views. For Blast - Formatting Output

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