Version update

README.md

@@ -84,7 +84,7 @@ A new wiki page about diploid-assembly-based SV detection using cuteSV has been
 |--sample| Sample name/id |NULL|
 |--retain_work_dir|Enable to retain temporary folder and files.|False|
 |--report_readid|Enable to report supporting read ids for each SV.|False|
-|--max_split_parts|Maximum number of split segments a read may be aligned before it is ignored.|7|
+|--max_split_parts|Maximum number of split segments a read may be aligned before it is ignored. All split segments are considered when using -1. (Recommand -1 when applying assembly-based alignment.)|7|
 |--min_mapq|Minimum mapping quality value of alignment to be taken into account.|20|
 |--min_read_len|Ignores reads that only report alignments with not longer than bp.|500|
 |--merge_del_threshold|Maximum distance of deletion signals to be merged.|0|
@@ -116,6 +116,16 @@ Please cite the manuscript of cuteSV before using these callsets.
 ---
 ### Changelog
 
+	cutesv (v1.0.11):
+	1. Add a script for post-processing typically cuteSV callsets from assembly-based alignments to generate the diploid-assembly-based SV calls.
+	2. Give a wiki page for helping uses to achieve assembly-based SV calling.
+	3. Improve acquirement of inserted sequence in a read whose primary alignment contains hardclips.
+	4. Improve the performance of force calling.
+	5. Enable cuteSV to output allele sequences when performing force calling with the VCF generated from other callers. 
+	6. Fix bugs to avoid the error raised by abnormal SV type.
+	7. Update the sort commands used in cuteSV.  
+	8. Update the parameter of --max_split_parts.
+
 	cutesv (v1.0.10):
 	1. Fix a bug leading to calculate wrong TRA positions.
 	2. Add a file format conversion script that enable to transfer the vcf file to bedpe file. 

setup.py

@@ -7,7 +7,7 @@
 
 setup(
     name = "cuteSV",
-    version = "1.0.10",
+    version = "1.0.11",
     description = "Long-read-based human genomic structural variation detection with cuteSV",
     author = "Jiang Tao",
     author_email = "[email protected]",

src/cuteSV/cuteSV

@@ -4,8 +4,8 @@
  * All rights Reserved, Designed By HIT-Bioinformatics   
  * @Title: cuteSV 
  * @author: tjiang
- * @data: Dec 31th 2020
- * @version V1.0.10
+ * @data: May 16th 2020
+ * @version V1.0.11
 '''
 
 import pysam

src/cuteSV/cuteSV_Description.py

@@ -2,12 +2,12 @@
  * All rights Reserved, Designed By HIT-Bioinformatics   
  * @Title:  cuteSV_Description.py
  * @author: tjiang
- * @date: Dec 31th 2020
- * @version V1.0.10
+ * @date: May 16th 2021
+ * @version V1.0.11
 '''
 import argparse
 
-VERSION = '1.0.10'
+VERSION = '1.0.11'
 
 class cuteSVdp(object):
 	'''