I'm trying to assemble FASTA sequences with CAP3 on Windows using Cygwin.
I have cap3.cygwin.tar from http://seq.cs.iastate.edu/cap3.html. Cygwin...
11 results in 0.0028 seconds.
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CAP3 cygwin doesn't work.
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CAP3 - strange behaviour, never finishes running (2xXeon 2620v4/Ubuntu 16.04.2 LTS)
I am running CAP3 under Ubuntu 16.04.2 LTS (2xXeon 2620v4) to assemble a very small data set (31 contigs in 7k-700k bp range). I am doing that to check... -
CAP3 not giving consensus and singlet files as output
Hi all,
I'm a bit confused as to why CAP3 is not giving .singlet and .contig output files as specified in the manual. The only output I... -
Feedback on TFLOW: De Novo Transcriptome Assembly Pipeline
Hi All!
I've been working for a few months on a command-line de novo transcriptome assembly pipeline called TFLOW (Transcriptome-Flow). I wanted... -
De novo assembly of reads
For de novo assembly of reads around the predicted insertion / deletion in VCF files.
1.) How many base pairs flanking the indels are... -
Two related transcriptomes: merging but avoiding fake fusion transcripts
Hi. I'd like to discuss a situation that has been partially discussed in this thread:
http://seqanswers.com/forums/showthread.php?t=33... -
inconsistent CAP3 assembly and alignment
I have 5 related EST sequences and I want to assemble contigs. I am using the sequence assembly program CAP3. Here is my data:
...Code:>ES981358
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Assembly with Reference Sequence
Hi, anybody can tell me about one program to assembly with a reference sequence (in Linux)
I use CAP3 but this can't use a reference sequence.... -
Settings for cap3 assembly of cDNA to genomic data
Hello,
Sorry if there has been an answer to this elsewhere- i couldn't find it.
I've been given the task of extending some short ESTs with... -
CAP3 Assembler for Ubuntu 11.04
Does anyone have a clue how to get this program functional on the ubuntu 11.04? -
CAP3 output *.ace in EagleView?
Hello,
I am a molecular biologist. We have done some EST sequencing and I used TGICL / CAP3 for sequence assembly. Everything works fine and it...
