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Created Issue: bcftools view doesn't read from stdin correctly [465]

This does not work:C:\Users\jlick\Desktop\DNA\James Lick>samtools view -u LF7687.bam MT | samtools mpileup -uf rCRS.fasta - | bcftools view -v - > out.vcf[mpileup] 1 samples in 1 input...

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Commented Issue: bcftools view doesn't read from stdin correctly [465]

This does not work:C:\Users\jlick\Desktop\DNA\James Lick>samtools view -u LF7687.bam MT | samtools mpileup -uf rCRS.fasta - | bcftools view -v - > out.vcf[mpileup] 1 samples in 1 input...

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Closed Issue: bcftools view doesn't read from stdin correctly [465]

This does not work:C:\Users\jlick\Desktop\DNA\James Lick>samtools view -u LF7687.bam MT | samtools mpileup -uf rCRS.fasta - | bcftools view -v - > out.vcf[mpileup] 1 samples in 1 input...

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Created Issue: bwa aln creates 0 length sai on Windows server 2008 R2 [552]

Hi,I appreciate your effort in porting BWA to windows. It's of great help.I tried running "bwa aln" in windows server 2008 R2 environment and it creates a zero length .sai file. I am using the index...

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Commented Issue: bwa aln creates 0 length sai [552]

Hi,I appreciate your effort in porting BWA to windows. It's of great help.I tried running "bwa aln" and it creates a zero length .sai file. I am using the index built from a linux host. Is that a valid...

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Commented Issue: bwa aln creates 0 length sai [552]

Hi,I appreciate your effort in porting BWA to windows. It's of great help.I tried running "bwa aln" and it creates a zero length .sai file. I am using the index built from a linux host. Is that a valid...

View Article

Closed Issue: bwa aln creates 0 length sai [552]

Hi,I appreciate your effort in porting BWA to windows. It's of great help.I tried running "bwa aln" and it creates a zero length .sai file. I am using the index built from a linux host. Is that a valid...

View Article

Created Unassigned: bwa sampe not working [811]

I am trying to run a bwa alignment on a windows machine. I am able to index and use aln command, but am not able to run bwa sampe. I even tried running without multithreading and still faced the same...

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Commented Unassigned: bwa sampe not working [811]

I am trying to run a bwa alignment on a windows machine. I am able to index and use aln command, but am not able to run bwa sampe. I even tried running without multithreading and still faced the same...

View Article


Commented Unassigned: bwa sampe not working [811]

I am trying to run a bwa alignment on a windows machine. I am able to index and use aln command, but am not able to run bwa sampe. I even tried running without multithreading and still faced the same...

View Article

Commented Unassigned: bwa sampe not working [811]

I am trying to run a bwa alignment on a windows machine. I am able to index and use aln command, but am not able to run bwa sampe. I even tried running without multithreading and still faced the same...

View Article

Closed Unassigned: bwa sampe not working [811]

I am trying to run a bwa alignment on a windows machine. I am able to index and use aln command, but am not able to run bwa sampe. I even tried running without multithreading and still faced the same...

View Article

Created Unassigned: BWA - Samse command [979]

Hi Dong,I am using your program in conjunction with the TASSEL 3 Genotyping By Sequencing Pipeline, which requires the command 'samse' to convert an .sai file to a .sam file. The example command is:bwa...

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Commented Unassigned: BWA - Samse command [979]

Hi Dong,I am using your program in conjunction with the TASSEL 3 Genotyping By Sequencing Pipeline, which requires the command 'samse' to convert an .sai file to a .sam file. The example command is:bwa...

View Article

Commented Unassigned: BWA - Samse command [979]

Hi Dong,I am using your program in conjunction with the TASSEL 3 Genotyping By Sequencing Pipeline, which requires the command 'samse' to convert an .sai file to a .sam file. The example command is:bwa...

View Article


Commented Unassigned: BWA - Samse command [979]

Hi Dong,I am using your program in conjunction with the TASSEL 3 Genotyping By Sequencing Pipeline, which requires the command 'samse' to convert an .sai file to a .sam file. The example command is:bwa...

View Article
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