User: Bioinfonext

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Bioinfonext100
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Posts by Bioinfonext

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Comment: C: hisat2_extract_splice_sites.py doesn't work
... Its not hisat2_extract_splice_sites.py; you should use extract_splice_sites.py Homo_sapiens.GRCh37.75.gtf > Homo_sapiens_splicesites.txt ...
written 7 weeks ago by Bioinfonext100
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How to convert GTF to gff file for read count using HTSeq
... Hi, HTseq need gff file for reads counts from alingment sam file. I have GTF file which I used for read alignment, How can I convert this into gff file. Thanks ...
rna-seq written 7 weeks ago by Bioinfonext100 • updated 7 weeks ago by Buffo1.1k
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Comment: C: How to install pip on HPC server
... Hi genomax, thanks for your time and so much effort, surely I am going ask to admin here and let you know if something comes out. ...
written 11 weeks ago by Bioinfonext100
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Comment: C: How to install pip on HPC server
... [3052771@login2(alces) ~]$ module load apps/python3 [3052751@login2(alces) ~]$ ./gridware/share/python/3.4.3/bin/htseq-count -h /opt/gridware/pkg/el6/apps/python3/3.6.4/gcc-4.4.7/bin/python3.6: error while lo ading shared libra ...
written 11 weeks ago by Bioinfonext100
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Comment: C: How to install pip on HPC server
... Do I need to load python3? ...
written 11 weeks ago by Bioinfonext100
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Comment: C: How to install pip on HPC server
... [ 3052751@login2(alces) ~]$ module list No Modulefiles Currently Loaded. ...
written 11 weeks ago by Bioinfonext100
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Comment: C: How to install pip on HPC server
... I run find commad from the same location: [3052751@login2(alces) ~]$ /gridware/share/python/3.4.3/bin/htseq-count -h -bash: /gridware/share/python/3.4.3/bin/htseq-count: No such file or directory [3052751@login2(alces) ~]$ ./.local/bin/htseq-count -h /opt/gridware/pkg ...
written 11 weeks ago by Bioinfonext100
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Comment: C: How to install pip on HPC server
... latest one: [3052751@login2(alces) ~]$ python -m /gridware/share/python/3.4.3/bin/htseq-count /opt/gridware/pkg/el6/apps/python/2.7.8/gcc-4.4.7/bin/python: Import by filename is not supported. ...
written 11 weeks ago by Bioinfonext100
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Comment: C: How to install pip on HPC server
... Hi genomax: Older version of htseq is already install on HPC server: that I can run by using below command but How should I run recent one that I have installed: older one: [3052751@login2(alces) ~]$ module add apps/htseq [3052751@login2(alces) ~]$ python -m H ...
written 11 weeks ago by Bioinfonext100
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Comment: C: How to install pip on HPC server
... Hi genomax: [3052751@login2(alces) ~]$ find . -type f -iname "*htseq*" ./.python-eggs/HTSeq-0.6.1p1-py2.7-linux-x86_64.egg-tmp/HTSeq/_HTSeq.so ./gridware/share/python/3.4.3/lib/python3.6/site-packages/HTSeq/_HTSeq.cpython-36m-x86_64-linux-gnu.so ./gridware/share/pytho ...
written 11 weeks ago by Bioinfonext100 • updated 11 weeks ago by genomax46k

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Popular Question 5 weeks ago, created a question with more than 1,000 views. For Find number of rows contain zero raw count across all sample (column) using R
Popular Question 5 weeks ago, created a question with more than 1,000 views. For How to merge multiple bam files into single bam file
Popular Question 5 weeks ago, created a question with more than 1,000 views. For Find number of rows contain zero raw count across all sample (column) using R
Popular Question 5 weeks ago, created a question with more than 1,000 views. For How to merge multiple bam files into single bam file
Popular Question 8 weeks ago, created a question with more than 1,000 views. For How to extract unmapped Paired end reads from BWA output sam file
Popular Question 8 weeks ago, created a question with more than 1,000 views. For Find number of rows contain zero raw count across all sample (column) using R
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