User: sratestimon

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Posts by sratestimon

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Comment: C: Python error when using MEGAHIT assembler
... I see ... Ya I know I should probably get a computer with REAL Linux base ... Thanks mon! ...
written 4 months ago by sratestimon0
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Comment: C: Python error when using MEGAHIT assembler
... I should clarify, it is the cygwin-installed python. Thanks for reminding me mon. So, do you mean that the cygwin-python might not be suitable for megahit? ...
written 4 months ago by sratestimon0
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Python error when using MEGAHIT assembler
... Hi Biostars, I have recently downloaded Megahit and would like to have a try on it. I have simply enter the following command: > ./megahit -r ./example/refExample.fa --k-max 99 --k-min 11 Which I would try to use the example given by Megahit with k-mer of maximum 99 and minimum of 11 to see i ...
python megahit assembly written 4 months ago by sratestimon0
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Comment: C: [Blastn]Alignment result changes after using -max_target_seqs option
... PLAST! First time hearing it! I will give it a try! Thanks Jacob! ...
written 4 months ago by sratestimon0
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Comment: C: [Blastn]Alignment result changes after using -max_target_seqs option
... I see, so NCBI did not regarded it as a bug... Which means actually there does not exist a good way to limit the number of alignment showed except filtering after running Blastn ... But my file will be super large if I do so... It seems like there is not yet a faster and a better program on perfor ...
written 4 months ago by sratestimon0
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[Blastn]Alignment result changes after using -max_target_seqs option
... Hi Biostar, I am trying to do Blastn on some data collected. However, as there are too many possible hits, I tried to limit the number of alignment showed in the result file by using -max_target_seqs option. The following is my command: >blastn -db ./db/nt -query ./test/250.fasta -out ./result ...
alignment blastn blast written 4 months ago by sratestimon0
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Comment: C: How to download all searched SRA result data at once?
... Thanks Tim, I will try it out ! ...
written 4 months ago by sratestimon0
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Comment: C: How to download all searched SRA result data at once?
... Hi Tim, do you think there is any way to run your script on a window based terminal? ...
written 4 months ago by sratestimon0
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Comment: C: How to download all searched SRA result data at once?
... I see ... Thanks Wouter anyway! Maybe I should start using virtual machine or even simply purchase a new desktop using linux ... ...
written 4 months ago by sratestimon0
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Comment: C: How to download all searched SRA result data at once?
... Oh yes... I did... Thanks Wouter! Would you mind if I ask one more thing. As I am using cygwin64, it is somehow strange that I cannot run SRAtool on bash... but I can do so when using window command terminal. It seems that SRAtoolkit for Linux is not applicable on cygwin64 ... I know that virtual ...
written 4 months ago by sratestimon0

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