运行动植物泛基因组教程02.gene_family.sh命令如下：orthofinder.py -f pep \
-S diamond \
-M msa \
-A muscle \
-T fasttree \
-t 10 \
-a 2 报错如下：Best outgroup(s) for species tree---------------------------------2024-11-15 10:50:56 : Starting STRIDEERROR: Species tree inf...
...O评估结果文件。
格式如下：
# BUSCO version is: 5.3.2# The lineage dataset is: eukaryota_odb10 (Creation date: 2020-09-10, number of genomes: 70, number of BUSCOs: 255)# Summarized benchmarking in BUSCO notation for file /share/nas5/wangq/project/genome_ass...
...galArgumentException: Sample Line68 has an inconsistent number of alleles. The first genotype is diploid, but the genotype at position Chr2:35902177 is haploid
...数]... 或者: shuf -i LO-HI [选项]...Write a random permutation ofthe input lines to standard output. 如果没有指定文件，或者文件为"-"，则从标准输入读取。 必选参数对长短选项同时适用。 -e, --echo treat each ARG as an input line...
...tie.map.log # Filter and output as SAM(or BAM),-f 4 to Remove reads from the alignment, # if you want to keep the -F on the alignment (12 for both ends), add -b before the output to output in BAM format samtools view --threads 6 \ -f 12 -h \ $workdir/1.host_del_and_qc/cleandata/${i}.bowtie.sam \...
...ellow,red" -t "SNP Density"这条代码后出现Error in scan(file = file, what = what, sep = sep, quote = quote, dec = dec, :
line 17 did not have 34 elements的问题，
查看了第17行，34个元素都在，并没有缺失
...金思路。接下来以一篇2018年7月30日发表在Cellular Physiology and Biochemistry（IF=5.5）上题为Genome-Wide Analysis of Prognostic lncRNAs, miRNAs, and mRNAs Forming a Competing Endogenous RNA Network in Hepatocellular Carcinoma 的文章为例，详细介绍下该类文章的写作...
...其中16个亚家族中(except 1,7, 13, 14, and 20)。
图注：
a: The 137 PebHLH genes are clustered into 16 subfamilies.
b: Comparison of bHLH family members from Moso bamboo, rice and Arabidopsis. Different colors represent the different species, andthe percentage of each subfamily in e...
...sample_INS_DEL.vcf.gz和unknow相关文件见附件
归档.zip
NOTICE: the --polish argument is set ON automatically (use --nopolish to change this behavior)
NOTICE: Running with system command <convert2annovar.pl -includeinfo -allsample -withfreq -format vcf4 all_sample_INS_DEL.vcf.gz &...