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I have installed pysam 0.15.1
when I run pysamstats:
```
import pysamstats.opt as opt
File "libchtslib.pxd", line 2590, in init pysamstats.opt
ValueError: pysam.libchtslib.HTSFile has the w…
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There is considerable interest in providing direct access to the compressed blocks within BAM/CRAM files corresponding to a given range query. It would be useful if htslib provided a low-level API t…
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There are lots of .o and .a files within the repository which must be removed before attempting to compile.
./libRareMetal/mvtnorm/obj/mvt.o
./libRareMetal/mvtnorm/obj/randomF77.o
./libRareMetal/…
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As explained on https://github.com/sepinf-inc/IPED/issues/1714#issuecomment-1591259306 ZIP is not the best format to collect files in triage situations.
One option is exporting to AD1, since it was…
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Hello,
I tried following command to install SVE:
export ROOTSYS=/home/programs
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$ROOTSYS/lib
git clone --recursive https://github.com/TheJacksonLaborat…
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Hi everyone,
I am trying to build manta from source by `git clone https://github.com/Illumina/manta`. After making a build directory named `build` and executing `configure`, I executed the followin…
ghost updated
4 years ago
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Hello author：
（1）bwa mem -5SP -t 80 Six_genome.bp.p_ctg.fasta Q-6-Hi_c_1.clean.fq.gz Q-6-Hi_c_2.clean.fq.gz | samblaster | samtools view - -@ 80 -S -h -b -F 3340 -o HiC.bam
（2）/home/export/online3/c…
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Dear Tamsen,
we use hs37d5 as reference genome which is based on hg19 but has additional decoy sequences plus the PhiX genome added by us. (See https://wiki.dnanexus.com/scientific-notes/human-geno…
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https://github.com/samtools/bcftools/commit/30dbc3c39ed92d3617fb0737ba533b1c97c3907e added code to override the requested format based on the filename suffix. Unfortunately `-Ob` and `-Ou` now both o…
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Jeremiah;
Now that we have VariantBam maximum coverage downsampling in bcbio (thank you again), we've been working on doing benchmarking runs with and without downsampling. Because we need to run it …